{
"page": "index.html",
"title": "Protein annotation leaderboard",
"source": {
"repo": "seanome/2024-kmerseek-analysis",
"commit": "4a4b11714ddb740f8a7e324058b26bee8fb35af4",
"commit_date": "2026-10-15T13:12:56Z",
"path": "results/leaderboard",
"copied_at": "2026-10-15T13:44:05Z",
"sha256": {
"results.parquet": "0c0cf94b5fc40587cab2ffbf7aaf84df9b5475037cc0d818ad2f452a9c73a837",
"compute.parquet": "8a47ba2123c60cbb41b4833c9f96661934369137b72c5d81ef0808c98247e435",
"coverage.md": "c10b26730d8dc44b16120bd2f6ee87eb8ed0db3efa40398b339ddac0b0cb7781",
"provenance.json": "22e54f206354e42208f8a78c4f4827f980ac1db2ce13153f2b077274552e4141",
"inventory.md": "8dc7040a38cf06af126bd08211edf1f6055c69fe9ac2b4088c6ba8f7f90e6c71",
"pileup/regions.parquet": "e97701d2fcb601babe25c7d5c6c82760ea19e460e9bc1d555fe5f8f69cb4d6d8",
"pileup/calls.parquet": "41bc1f6db7bf54f00370b11db2ffed61031d90a42895aa1697be26fc449ea958",
"pileup/provenance.json": "5ed6e70dd9e82b5200f089b9da3afc62d0a10cc6a51da86715f5f26d3aac9b9e"
},
"pileup_commit": "39d81ec90815cacbf3744199d1fa8e99ab28c6f4"
},
"text": [
{
"tag": "h1",
"text": "Protein annotation leaderboard"
},
{
"tag": "p",
"text": "Which tool puts the known domains and features of human proteins in the right place, and what does it cost?"
},
{
"tag": "p",
"text": "Data from 15 Oct 2026, commit 4a4b1171 (source)"
},
{
"tag": "summary",
"text": "Change what is ranked"
},
{
"tag": "p",
"text": "The benchmark split the proteins along one of the last four rows at a time, so picking a value in one of them sets the other three back to \"any\"."
},
{
"tag": "figcaption",
"text": "Table 1. Tools ranked by Fmax, highest first, best setting of each tool. Show every setting More columns"
},
{
"tag": "summary",
"text": "The marks and colours in Table 1, in full"
},
{
"tag": "p",
"text": "In plain words: Fmax asks whether a tool finds the real domains without adding wrong ones. AUPRC asks whether its correct calls stay at the top of its list. Median IoU asks how well the ends of its right calls line up with the real domain. All run 0 to 1, and higher is better. Hover or tap a ? for more, or see How the scores work, which works each through on a made-up protein."
},
{
"tag": "p",
"text": "Each tool searched 998 human proteins, most from chromosome 6, against one relative's proteome and copied its annotations (which proteins)."
},
{
"tag": "p",
"text": "Estimated cost = core-hours × r_cpu + GPU-hours × r_gpu, per 1,000 queries, for the search alone (how cost is counted)."
},
{
"tag": "summary",
"text": "How to choose between Fmax and AUPRC, and raw against dedup"
},
{
"tag": "p",
"text": "Fmax is the score at the single best cutoff on the tool's own score, protein by protein: use it when you will keep every call above one cutoff. AUPRC sums precision over every cutoff, counting each call: use it when you will rank calls and read down the list. The two can rank tools in opposite orders, because AUPRC pools every call of every protein while Fmax averages protein by protein. A domain reported many times counts against both. Dedup merges those copies; for phmmer against zebrafish (Pfam) it moves Fmax from 0.333 to 0.457 and AUPRC from 0.029 to 0.111. Definitions: Methods."
}
],
"data": {
"note": "The table is drawn from these rows: results keyed truth|calls|species|stratum_axis|stratum, then tool|setting -> [fmax, auprc, median_iou_tp, n_truth_instances]; compute keyed tool|setting|species.",
"meta": {
"defaults": {
"truth": "pfam",
"calls": "raw",
"species": "zebrafish",
"axis": "all",
"stratum": "all",
"x": "cpu",
"y": "fmax",
"sort": "fmax",
"dir": "desc",
"view": "best",
"r_cpu": 0.044625,
"r_gpu": 1.006
},
"chiprows": [
{
"id": "truth",
"kind": "plain",
"label": "Truth set",
"help": "the known annotations calls are graded against. Pfam: protein domain families. Pfam-N: regions a deep-learning model added where Pfam's own models found nothing. Swiss-Prot features: 12 kinds of curated feature, such as active sites and membrane-spanning segments",
"groups": [
{
"chips": [
{
"value": "swissprot",
"label": "Swiss-Prot features",
"title": "curated features from Swiss-Prot entries"
},
{
"value": "pfam",
"label": "Pfam",
"title": "Pfam-A domain families"
},
{
"value": "pfamn",
"label": "Pfam-N",
"title": "regions added by a deep-learning model where Pfam-A's models found nothing (Pfam 35.0)"
}
]
}
]
},
{
"id": "calls",
"kind": "plain",
"label": "Dedup or raw",
"help": "raw keeps every call; dedup merges calls of one family that overlap on the same protein, so one domain hit by many relatives' proteins counts once",
"groups": [
{
"chips": [
{
"value": "raw",
"label": "raw"
},
{
"value": "dedup",
"label": "dedup"
}
]
}
]
},
{
"id": "species",
"kind": "plain",
"label": "Nearest reviewed relative: time since split",
"help": "the species whose annotated proteome is searched and whose annotations are copied onto the human proteins; the number is how many million years (Mya) ago its line split from ours",
"groups": [
{
"label": "mammals",
"chips": [
{
"value": "ptroglodytes",
"label": "chimpanzee 6"
},
{
"value": "rnorvegicus",
"label": "rat 90"
},
{
"value": "clupus",
"label": "dog 95"
},
{
"value": "btaurus",
"label": "cow 95"
},
{
"value": "mouse",
"label": "mouse 100"
},
{
"value": "mdomestica",
"label": "opossum 160"
}
]
},
{
"label": "other vertebrates",
"chips": [
{
"value": "chicken",
"label": "chicken 300"
},
{
"value": "xtropicalis",
"label": "western clawed frog 350"
},
{
"value": "zebrafish",
"label": "zebrafish 430"
}
]
},
{
"label": "invertebrates",
"chips": [
{
"value": "ciona",
"label": "sea squirt (Ciona) 550"
},
{
"value": "fly",
"label": "fruit fly 600"
},
{
"value": "worm",
"label": "nematode (C. elegans) 650"
}
]
},
{
"label": "fungus, plant, bacterium",
"chips": [
{
"value": "yeast",
"label": "baker's yeast 900"
},
{
"value": "arabidopsis",
"label": "thale cress (Arabidopsis) 1500"
},
{
"value": "ecoli",
"label": "E. coli 2000"
}
]
},
{
"label": "no relative",
"chips": [
{
"value": "all",
"label": "none: Pfam models (hmmscan only)"
}
]
}
]
},
{
"id": "identity",
"kind": "stratum",
"axis": "identity",
"label": "Nearest reviewed relative: % identity",
"help": "% identity of each human domain to the closest domain of the same family in that relative",
"groups": [
{
"chips": [
{
"value": "all",
"label": "any"
},
{
"value": "0-20%",
"label": "0–20%"
},
{
"value": "20-30%",
"label": "20–30%"
},
{
"value": "30-40%",
"label": "30–40%"
},
{
"value": "40-60%",
"label": "40–60%"
},
{
"value": "60-100%",
"label": "60–100%"
},
{
"value": "no_homolog",
"label": "no same-family domain"
}
]
}
]
},
{
"id": "length",
"kind": "stratum",
"axis": "feature_length_bin",
"label": "Region type and length",
"help": "length of the annotated region the call must find",
"groups": [
{
"chips": [
{
"value": "all",
"label": "any"
}
]
},
{
"label": "short feature, 60 aa or less",
"chips": [
{
"value": "1",
"label": "1 aa"
},
{
"value": "2-15",
"label": "2–15 aa"
},
{
"value": "16-30",
"label": "16–30 aa"
},
{
"value": "31-60",
"label": "31–60 aa"
}
]
},
{
"label": "folded domain, 61 aa or more",
"chips": [
{
"value": "61-120",
"label": "61–120 aa"
},
{
"value": "121-250",
"label": "121–250 aa"
},
{
"value": "251+",
"label": "251 aa or more"
}
]
},
{
"chips": [
{
"value": "whole_protein",
"label": "whole protein",
"empty": true
}
]
}
]
},
{
"id": "plddt",
"kind": "stratum",
"axis": "plddt",
"label": "Disorder",
"help": "mean AlphaFold confidence (pLDDT, 0–100) of the human protein; low values mean disordered or unknown shape",
"groups": [
{
"chips": [
{
"value": "all",
"label": "any"
},
{
"value": "0-50",
"label": "0–50",
"empty": true
},
{
"value": "50-70",
"label": "50–70"
},
{
"value": "70-90",
"label": "70–90"
},
{
"value": "90-100",
"label": "90–100"
}
]
}
]
},
{
"id": "ftype",
"kind": "stratum",
"axis": "feature_type",
"label": "Feature type",
"help": "the kind of Swiss-Prot feature; only the Swiss-Prot truth set has these",
"groups": [
{
"chips": [
{
"value": "all",
"label": "any"
},
{
"value": "ACT_SITE",
"label": "active site",
"title": "ACT_SITE: active site residue"
},
{
"value": "BINDING",
"label": "binding site",
"title": "BINDING: binding site residue"
},
{
"value": "COILED",
"label": "coiled coil",
"title": "COILED: coiled coil"
},
{
"value": "DNA_BIND",
"label": "DNA-binding region",
"title": "DNA_BIND: DNA-binding region"
},
{
"value": "DOMAIN",
"label": "domain",
"title": "DOMAIN: domain"
},
{
"value": "INTRAMEM",
"label": "in-membrane region",
"title": "INTRAMEM: region inside the membrane that does not cross it"
},
{
"value": "MOTIF",
"label": "short motif",
"title": "MOTIF: short motif"
},
{
"value": "REGION",
"label": "region of interest",
"title": "REGION: region of interest"
},
{
"value": "REPEAT",
"label": "repeat",
"title": "REPEAT: repeat"
},
{
"value": "SITE",
"label": "other site",
"title": "SITE: other single-residue site"
},
{
"value": "TRANSMEM",
"label": "membrane-spanning",
"title": "TRANSMEM: membrane-spanning segment"
},
{
"value": "ZN_FING",
"label": "zinc finger",
"title": "ZN_FING: zinc finger"
}
]
}
]
}
],
"rows": [
{
"tool": "hmmer3_phmmer",
"setting": "default",
"order": 0,
"label": "default options",
"words": "phmmer's default options, E-value cutoff 10",
"shape": "circle"
},
{
"tool": "mmseqs2_seqseq",
"setting": "s7",
"order": 1,
"label": "sensitivity 7",
"words": "sensitivity 7 (-s 7), one round",
"shape": "square"
},
{
"tool": "hmmer3_jackhmmer",
"setting": "n3",
"order": 2,
"label": "3 rounds",
"words": "three rounds of search (-N 3)",
"shape": "circle"
},
{
"tool": "mmseqs2_iterative",
"setting": "s7",
"order": 3,
"label": "sensitivity 7, 3 rounds",
"words": "sensitivity 7 (-s 7), three rounds",
"shape": "square"
},
{
"tool": "hhblits",
"setting": "single_seq",
"order": 4,
"label": "single-protein profiles",
"words": "profiles built from single proteins, no family database",
"shape": "triangle"
},
{
"tool": "foldseek",
"setting": "3di_aa",
"order": 5,
"label": "shape letters + amino acids",
"words": "3Di shape letters and amino acids together",
"shape": "circle"
},
{
"tool": "prostt5",
"setting": "3di_from_seq",
"order": 6,
"label": "shape letters from sequence",
"words": "3Di letters predicted from sequence by ProstT5",
"shape": "square"
},
{
"tool": "kmerseek",
"setting": "hp_thomas_dill2_k24_lcFalse",
"order": 7,
"label": "hp_thomas_dill2, k = 24",
"words": "alphabet hp_thomas_dill2 (2 letters, hydrophobic ACFILMVWY and polar DEGHKNPQRST (Thomas and Dill 1996)), k = 24, low-complexity k-mers kept",
"shape": "diamond"
},
{
"tool": "kmerseek",
"setting": "hp_thomas_dill2_k27_lcFalse",
"order": 8,
"label": "hp_thomas_dill2, k = 27",
"words": "alphabet hp_thomas_dill2 (2 letters, hydrophobic ACFILMVWY and polar DEGHKNPQRST (Thomas and Dill 1996)), k = 27, low-complexity k-mers kept",
"shape": "diamond"
},
{
"tool": "kmerseek",
"setting": "hp_thomas_dill2_k30_lcFalse",
"order": 9,
"label": "hp_thomas_dill2, k = 30",
"words": "alphabet hp_thomas_dill2 (2 letters, hydrophobic ACFILMVWY and polar DEGHKNPQRST (Thomas and Dill 1996)), k = 30, low-complexity k-mers kept",
"shape": "diamond"
},
{
"tool": "kmerseek",
"setting": "hp_thomas_dill2_k33_lcFalse",
"order": 10,
"label": "hp_thomas_dill2, k = 33",
"words": "alphabet hp_thomas_dill2 (2 letters, hydrophobic ACFILMVWY and polar DEGHKNPQRST (Thomas and Dill 1996)), k = 33, low-complexity k-mers kept",
"shape": "diamond"
},
{
"tool": "kmerseek",
"setting": "gbmr4_k15_lcFalse",
"order": 11,
"label": "gbmr4, k = 15",
"words": "alphabet gbmr4 (4 letters: ADKERNTSQ, YFLIVMCWH, G, P (Solis and Rackovsky 2000)), k = 15, low-complexity k-mers kept",
"shape": "square"
},
{
"tool": "kmerseek",
"setting": "gbmr4_k17_lcFalse",
"order": 12,
"label": "gbmr4, k = 17",
"words": "alphabet gbmr4 (4 letters: ADKERNTSQ, YFLIVMCWH, G, P (Solis and Rackovsky 2000)), k = 17, low-complexity k-mers kept",
"shape": "square"
},
{
"tool": "kmerseek",
"setting": "gbmr4_k19_lcFalse",
"order": 13,
"label": "gbmr4, k = 19",
"words": "alphabet gbmr4 (4 letters: ADKERNTSQ, YFLIVMCWH, G, P (Solis and Rackovsky 2000)), k = 19, low-complexity k-mers kept",
"shape": "square"
},
{
"tool": "kmerseek",
"setting": "gbmr4_k21_lcFalse",
"order": 14,
"label": "gbmr4, k = 21",
"words": "alphabet gbmr4 (4 letters: ADKERNTSQ, YFLIVMCWH, G, P (Solis and Rackovsky 2000)), k = 21, low-complexity k-mers kept",
"shape": "square"
},
{
"tool": "kmerseek",
"setting": "wwmj5_k11_lcFalse",
"order": 15,
"label": "wwmj5, k = 11",
"words": "alphabet wwmj5 (5 letters: CMFILVWY, ATH, GP, DE, SNQRK (Wang and Wang 1999)), k = 11, low-complexity k-mers kept",
"shape": "triangle"
},
{
"tool": "kmerseek",
"setting": "wwmj5_k12_lcFalse",
"order": 16,
"label": "wwmj5, k = 12",
"words": "alphabet wwmj5 (5 letters: CMFILVWY, ATH, GP, DE, SNQRK (Wang and Wang 1999)), k = 12, low-complexity k-mers kept",
"shape": "triangle"
},
{
"tool": "kmerseek",
"setting": "wwmj5_k14_lcFalse",
"order": 17,
"label": "wwmj5, k = 14",
"words": "alphabet wwmj5 (5 letters: CMFILVWY, ATH, GP, DE, SNQRK (Wang and Wang 1999)), k = 14, low-complexity k-mers kept",
"shape": "triangle"
},
{
"tool": "kmerseek",
"setting": "wwmj5_k15_lcFalse",
"order": 18,
"label": "wwmj5, k = 15",
"words": "alphabet wwmj5 (5 letters: CMFILVWY, ATH, GP, DE, SNQRK (Wang and Wang 1999)), k = 15, low-complexity k-mers kept",
"shape": "triangle"
},
{
"tool": "kmerseek",
"setting": "protein20_k6_lcFalse",
"order": 19,
"label": "protein20, k = 6",
"words": "alphabet protein20 (the 20 amino acids, not reduced), k = 6, low-complexity k-mers kept",
"shape": "circle"
},
{
"tool": "kmerseek",
"setting": "protein20_k7_lcFalse",
"order": 20,
"label": "protein20, k = 7",
"words": "alphabet protein20 (the 20 amino acids, not reduced), k = 7, low-complexity k-mers kept",
"shape": "circle"
},
{
"tool": "kmerseek",
"setting": "protein20_k8_lcFalse",
"order": 21,
"label": "protein20, k = 8",
"words": "alphabet protein20 (the 20 amino acids, not reduced), k = 8, low-complexity k-mers kept",
"shape": "circle"
},
{
"tool": "hmmscan",
"setting": "direct",
"order": 22,
"label": "Pfam models",
"words": "scans Pfam's models; no relative searched",
"shape": "circle"
}
],
"tools": {
"foldseek": {
"name": "Foldseek",
"kind": "shapes",
"shape": "circle",
"tags": [
"needs 3D structure prediction"
]
},
"hhblits": {
"name": "HH-suite (hhsearch)",
"kind": "profiles",
"shape": "triangle",
"tags": []
},
"hmmer3_jackhmmer": {
"name": "jackhmmer",
"kind": "profiles",
"shape": "circle",
"tags": []
},
"hmmer3_phmmer": {
"name": "phmmer",
"kind": "letters",
"shape": "circle",
"tags": []
},
"hmmscan": {
"name": "hmmscan with Pfam",
"kind": "models",
"shape": "circle",
"tags": []
},
"kmerseek": {
"name": "kmerseek",
"kind": "kmers",
"shape": "circle",
"tags": []
},
"mmseqs2_iterative": {
"name": "MMseqs2, three rounds",
"kind": "profiles",
"shape": "square",
"tags": []
},
"mmseqs2_seqseq": {
"name": "MMseqs2",
"kind": "letters",
"shape": "square",
"tags": []
},
"prostt5": {
"name": "ProstT5 + Foldseek",
"kind": "shapes",
"shape": "square",
"tags": [
"needs GPU"
]
}
},
"kinds": {
"letters": {
"label": "aligns amino-acid letters",
"color": "#0072B2"
},
"profiles": {
"label": "builds a profile of a protein family",
"color": "#E69F00"
},
"shapes": {
"label": "compares 3-D shape letters (3Di)",
"color": "#009E73"
},
"kmers": {
"label": "counts shared k-mers in a reduced alphabet",
"color": "#CC3311"
},
"models": {
"label": "scans curated Pfam family models",
"color": "#6B4C9A"
}
},
"species": {
"ptroglodytes": {
"name": "chimpanzee",
"mya": 6
},
"rnorvegicus": {
"name": "rat",
"mya": 90
},
"clupus": {
"name": "dog",
"mya": 95
},
"btaurus": {
"name": "cow",
"mya": 95
},
"mouse": {
"name": "mouse",
"mya": 100
},
"mdomestica": {
"name": "opossum",
"mya": 160
},
"chicken": {
"name": "chicken",
"mya": 300
},
"xtropicalis": {
"name": "western clawed frog",
"mya": 350
},
"zebrafish": {
"name": "zebrafish",
"mya": 430
},
"ciona": {
"name": "sea squirt (Ciona)",
"mya": 550
},
"fly": {
"name": "fruit fly",
"mya": 600
},
"worm": {
"name": "nematode (C. elegans)",
"mya": 650
},
"yeast": {
"name": "baker's yeast",
"mya": 900
},
"arabidopsis": {
"name": "thale cress (Arabidopsis)",
"mya": 1500
},
"ecoli": {
"name": "E. coli",
"mya": 2000
},
"all": {
"name": "none: Pfam models (hmmscan only)",
"mya": null
}
},
"truthNames": {
"swissprot": "Swiss-Prot features",
"pfam": "Pfam",
"pfamn": "Pfam-N"
},
"metrics": [
{
"id": "fmax",
"label": "Fmax",
"field": "fmax"
},
{
"id": "auprc",
"label": "AUPRC",
"field": "auprc"
},
{
"id": "iou",
"label": "Median IoU",
"field": "iou"
}
],
"axes": [
{
"id": "fmax",
"label": "Fmax, 0 to 1",
"short": "Fmax",
"kind": "score",
"better": "higher"
},
{
"id": "auprc",
"label": "AUPRC, 0 to 1",
"short": "AUPRC",
"kind": "score",
"better": "higher"
},
{
"id": "iou",
"label": "Median IoU of correct calls, 0 to 1",
"short": "median IoU",
"kind": "score",
"better": "higher"
},
{
"id": "cpu",
"label": "Core-hours per 1,000 queries, per relative searched",
"short": "core-hours",
"kind": "cost",
"better": "lower",
"less": "cheaper in core-hours"
},
{
"id": "cost",
"label": "Estimated cost, USD per 1,000 queries, per relative searched",
"short": "cost",
"kind": "cost",
"better": "lower",
"less": "cheaper"
},
{
"id": "wall",
"label": "Wall-clock hours per 1,000 queries, per relative searched",
"short": "wall-clock time",
"kind": "cost",
"better": "lower",
"less": "faster"
},
{
"id": "ram",
"label": "Peak RAM of the search, GB",
"short": "peak RAM",
"kind": "cost",
"better": "lower",
"less": "lighter on memory"
},
{
"id": "db",
"label": "Database build, core-hours per database built",
"short": "database build time",
"kind": "cost",
"better": "lower",
"less": "quicker to build its databases"
}
],
"searched": [
"foldseek|3di_aa|arabidopsis",
"foldseek|3di_aa|chicken",
"foldseek|3di_aa|ciona",
"foldseek|3di_aa|ecoli",
"foldseek|3di_aa|fly",
"foldseek|3di_aa|mouse",
"foldseek|3di_aa|rnorvegicus",
"foldseek|3di_aa|worm",
"foldseek|3di_aa|yeast",
"foldseek|3di_aa|zebrafish",
"hhblits|single_seq|arabidopsis",
"hhblits|single_seq|btaurus",
"hhblits|single_seq|chicken",
"hhblits|single_seq|ciona",
"hhblits|single_seq|clupus",
"hhblits|single_seq|ecoli",
"hhblits|single_seq|fly",
"hhblits|single_seq|mdomestica",
"hhblits|single_seq|mouse",
"hhblits|single_seq|ptroglodytes",
"hhblits|single_seq|rnorvegicus",
"hhblits|single_seq|worm",
"hhblits|single_seq|xtropicalis",
"hhblits|single_seq|yeast",
"hhblits|single_seq|zebrafish",
"hmmer3_jackhmmer|n3|arabidopsis",
"hmmer3_jackhmmer|n3|btaurus",
"hmmer3_jackhmmer|n3|chicken",
"hmmer3_jackhmmer|n3|ciona",
"hmmer3_jackhmmer|n3|clupus",
"hmmer3_jackhmmer|n3|ecoli",
"hmmer3_jackhmmer|n3|fly",
"hmmer3_jackhmmer|n3|mdomestica",
"hmmer3_jackhmmer|n3|mouse",
"hmmer3_jackhmmer|n3|ptroglodytes",
"hmmer3_jackhmmer|n3|rnorvegicus",
"hmmer3_jackhmmer|n3|worm",
"hmmer3_jackhmmer|n3|xtropicalis",
"hmmer3_jackhmmer|n3|yeast",
"hmmer3_jackhmmer|n3|zebrafish",
"hmmer3_phmmer|default|arabidopsis",
"hmmer3_phmmer|default|btaurus",
"hmmer3_phmmer|default|chicken",
"hmmer3_phmmer|default|ciona",
"hmmer3_phmmer|default|clupus",
"hmmer3_phmmer|default|ecoli",
"hmmer3_phmmer|default|fly",
"hmmer3_phmmer|default|mdomestica",
"hmmer3_phmmer|default|mouse",
"hmmer3_phmmer|default|ptroglodytes",
"hmmer3_phmmer|default|rnorvegicus",
"hmmer3_phmmer|default|worm",
"hmmer3_phmmer|default|xtropicalis",
"hmmer3_phmmer|default|yeast",
"hmmer3_phmmer|default|zebrafish",
"hmmscan|direct|all",
"kmerseek|gbmr4_k15_lcFalse|arabidopsis",
"kmerseek|gbmr4_k15_lcFalse|btaurus",
"kmerseek|gbmr4_k15_lcFalse|chicken",
"kmerseek|gbmr4_k15_lcFalse|ciona",
"kmerseek|gbmr4_k15_lcFalse|clupus",
"kmerseek|gbmr4_k15_lcFalse|ecoli",
"kmerseek|gbmr4_k15_lcFalse|fly",
"kmerseek|gbmr4_k15_lcFalse|mdomestica",
"kmerseek|gbmr4_k15_lcFalse|mouse",
"kmerseek|gbmr4_k15_lcFalse|ptroglodytes",
"kmerseek|gbmr4_k15_lcFalse|rnorvegicus",
"kmerseek|gbmr4_k15_lcFalse|worm",
"kmerseek|gbmr4_k15_lcFalse|xtropicalis",
"kmerseek|gbmr4_k15_lcFalse|yeast",
"kmerseek|gbmr4_k15_lcFalse|zebrafish",
"kmerseek|gbmr4_k17_lcFalse|arabidopsis",
"kmerseek|gbmr4_k17_lcFalse|btaurus",
"kmerseek|gbmr4_k17_lcFalse|chicken",
"kmerseek|gbmr4_k17_lcFalse|ciona",
"kmerseek|gbmr4_k17_lcFalse|clupus",
"kmerseek|gbmr4_k17_lcFalse|ecoli",
"kmerseek|gbmr4_k17_lcFalse|fly",
"kmerseek|gbmr4_k17_lcFalse|mdomestica",
"kmerseek|gbmr4_k17_lcFalse|mouse",
"kmerseek|gbmr4_k17_lcFalse|ptroglodytes",
"kmerseek|gbmr4_k17_lcFalse|rnorvegicus",
"kmerseek|gbmr4_k17_lcFalse|worm",
"kmerseek|gbmr4_k17_lcFalse|xtropicalis",
"kmerseek|gbmr4_k17_lcFalse|yeast",
"kmerseek|gbmr4_k17_lcFalse|zebrafish",
"kmerseek|gbmr4_k19_lcFalse|arabidopsis",
"kmerseek|gbmr4_k19_lcFalse|btaurus",
"kmerseek|gbmr4_k19_lcFalse|chicken",
"kmerseek|gbmr4_k19_lcFalse|ciona",
"kmerseek|gbmr4_k19_lcFalse|clupus",
"kmerseek|gbmr4_k19_lcFalse|ecoli",
"kmerseek|gbmr4_k19_lcFalse|fly",
"kmerseek|gbmr4_k19_lcFalse|mdomestica",
"kmerseek|gbmr4_k19_lcFalse|mouse",
"kmerseek|gbmr4_k19_lcFalse|ptroglodytes",
"kmerseek|gbmr4_k19_lcFalse|rnorvegicus",
"kmerseek|gbmr4_k19_lcFalse|worm",
"kmerseek|gbmr4_k19_lcFalse|xtropicalis",
"kmerseek|gbmr4_k19_lcFalse|yeast",
"kmerseek|gbmr4_k19_lcFalse|zebrafish",
"kmerseek|gbmr4_k21_lcFalse|arabidopsis",
"kmerseek|gbmr4_k21_lcFalse|btaurus",
"kmerseek|gbmr4_k21_lcFalse|chicken",
"kmerseek|gbmr4_k21_lcFalse|ciona",
"kmerseek|gbmr4_k21_lcFalse|clupus",
"kmerseek|gbmr4_k21_lcFalse|ecoli",
"kmerseek|gbmr4_k21_lcFalse|fly",
"kmerseek|gbmr4_k21_lcFalse|mdomestica",
"kmerseek|gbmr4_k21_lcFalse|mouse",
"kmerseek|gbmr4_k21_lcFalse|ptroglodytes",
"kmerseek|gbmr4_k21_lcFalse|rnorvegicus",
"kmerseek|gbmr4_k21_lcFalse|worm",
"kmerseek|gbmr4_k21_lcFalse|xtropicalis",
"kmerseek|gbmr4_k21_lcFalse|yeast",
"kmerseek|gbmr4_k21_lcFalse|zebrafish",
"kmerseek|hp_thomas_dill2_k24_lcFalse|arabidopsis",
"kmerseek|hp_thomas_dill2_k24_lcFalse|btaurus",
"kmerseek|hp_thomas_dill2_k24_lcFalse|chicken",
"kmerseek|hp_thomas_dill2_k24_lcFalse|ciona",
"kmerseek|hp_thomas_dill2_k24_lcFalse|clupus",
"kmerseek|hp_thomas_dill2_k24_lcFalse|ecoli",
"kmerseek|hp_thomas_dill2_k24_lcFalse|fly",
"kmerseek|hp_thomas_dill2_k24_lcFalse|mdomestica",
"kmerseek|hp_thomas_dill2_k24_lcFalse|mouse",
"kmerseek|hp_thomas_dill2_k24_lcFalse|ptroglodytes",
"kmerseek|hp_thomas_dill2_k24_lcFalse|rnorvegicus",
"kmerseek|hp_thomas_dill2_k24_lcFalse|worm",
"kmerseek|hp_thomas_dill2_k24_lcFalse|xtropicalis",
"kmerseek|hp_thomas_dill2_k24_lcFalse|yeast",
"kmerseek|hp_thomas_dill2_k24_lcFalse|zebrafish",
"kmerseek|hp_thomas_dill2_k27_lcFalse|arabidopsis",
"kmerseek|hp_thomas_dill2_k27_lcFalse|btaurus",
"kmerseek|hp_thomas_dill2_k27_lcFalse|chicken",
"kmerseek|hp_thomas_dill2_k27_lcFalse|ciona",
"kmerseek|hp_thomas_dill2_k27_lcFalse|clupus",
"kmerseek|hp_thomas_dill2_k27_lcFalse|ecoli",
"kmerseek|hp_thomas_dill2_k27_lcFalse|fly",
"kmerseek|hp_thomas_dill2_k27_lcFalse|mdomestica",
"kmerseek|hp_thomas_dill2_k27_lcFalse|mouse",
"kmerseek|hp_thomas_dill2_k27_lcFalse|ptroglodytes",
"kmerseek|hp_thomas_dill2_k27_lcFalse|rnorvegicus",
"kmerseek|hp_thomas_dill2_k27_lcFalse|worm",
"kmerseek|hp_thomas_dill2_k27_lcFalse|xtropicalis",
"kmerseek|hp_thomas_dill2_k27_lcFalse|yeast",
"kmerseek|hp_thomas_dill2_k27_lcFalse|zebrafish",
"kmerseek|hp_thomas_dill2_k30_lcFalse|arabidopsis",
"kmerseek|hp_thomas_dill2_k30_lcFalse|btaurus",
"kmerseek|hp_thomas_dill2_k30_lcFalse|chicken",
"kmerseek|hp_thomas_dill2_k30_lcFalse|ciona",
"kmerseek|hp_thomas_dill2_k30_lcFalse|clupus",
"kmerseek|hp_thomas_dill2_k30_lcFalse|ecoli",
"kmerseek|hp_thomas_dill2_k30_lcFalse|fly",
"kmerseek|hp_thomas_dill2_k30_lcFalse|mdomestica",
"kmerseek|hp_thomas_dill2_k30_lcFalse|mouse",
"kmerseek|hp_thomas_dill2_k30_lcFalse|ptroglodytes",
"kmerseek|hp_thomas_dill2_k30_lcFalse|rnorvegicus",
"kmerseek|hp_thomas_dill2_k30_lcFalse|worm",
"kmerseek|hp_thomas_dill2_k30_lcFalse|xtropicalis",
"kmerseek|hp_thomas_dill2_k30_lcFalse|yeast",
"kmerseek|hp_thomas_dill2_k30_lcFalse|zebrafish",
"kmerseek|hp_thomas_dill2_k33_lcFalse|arabidopsis",
"kmerseek|hp_thomas_dill2_k33_lcFalse|btaurus",
"kmerseek|hp_thomas_dill2_k33_lcFalse|chicken",
"kmerseek|hp_thomas_dill2_k33_lcFalse|ciona",
"kmerseek|hp_thomas_dill2_k33_lcFalse|clupus",
"kmerseek|hp_thomas_dill2_k33_lcFalse|ecoli",
"kmerseek|hp_thomas_dill2_k33_lcFalse|fly",
"kmerseek|hp_thomas_dill2_k33_lcFalse|mdomestica",
"kmerseek|hp_thomas_dill2_k33_lcFalse|mouse",
"kmerseek|hp_thomas_dill2_k33_lcFalse|ptroglodytes",
"kmerseek|hp_thomas_dill2_k33_lcFalse|rnorvegicus",
"kmerseek|hp_thomas_dill2_k33_lcFalse|worm",
"kmerseek|hp_thomas_dill2_k33_lcFalse|xtropicalis",
"kmerseek|hp_thomas_dill2_k33_lcFalse|yeast",
"kmerseek|hp_thomas_dill2_k33_lcFalse|zebrafish",
"kmerseek|protein20_k6_lcFalse|arabidopsis",
"kmerseek|protein20_k6_lcFalse|btaurus",
"kmerseek|protein20_k6_lcFalse|chicken",
"kmerseek|protein20_k6_lcFalse|ciona",
"kmerseek|protein20_k6_lcFalse|clupus",
"kmerseek|protein20_k6_lcFalse|ecoli",
"kmerseek|protein20_k6_lcFalse|fly",
"kmerseek|protein20_k6_lcFalse|mdomestica",
"kmerseek|protein20_k6_lcFalse|mouse",
"kmerseek|protein20_k6_lcFalse|ptroglodytes",
"kmerseek|protein20_k6_lcFalse|rnorvegicus",
"kmerseek|protein20_k6_lcFalse|worm",
"kmerseek|protein20_k6_lcFalse|xtropicalis",
"kmerseek|protein20_k6_lcFalse|yeast",
"kmerseek|protein20_k6_lcFalse|zebrafish",
"kmerseek|protein20_k7_lcFalse|arabidopsis",
"kmerseek|protein20_k7_lcFalse|btaurus",
"kmerseek|protein20_k7_lcFalse|chicken",
"kmerseek|protein20_k7_lcFalse|ciona",
"kmerseek|protein20_k7_lcFalse|clupus",
"kmerseek|protein20_k7_lcFalse|ecoli",
"kmerseek|protein20_k7_lcFalse|fly",
"kmerseek|protein20_k7_lcFalse|mdomestica",
"kmerseek|protein20_k7_lcFalse|mouse",
"kmerseek|protein20_k7_lcFalse|ptroglodytes",
"kmerseek|protein20_k7_lcFalse|rnorvegicus",
"kmerseek|protein20_k7_lcFalse|worm",
"kmerseek|protein20_k7_lcFalse|xtropicalis",
"kmerseek|protein20_k7_lcFalse|yeast",
"kmerseek|protein20_k7_lcFalse|zebrafish",
"kmerseek|protein20_k8_lcFalse|arabidopsis",
"kmerseek|protein20_k8_lcFalse|btaurus",
"kmerseek|protein20_k8_lcFalse|chicken",
"kmerseek|protein20_k8_lcFalse|ciona",
"kmerseek|protein20_k8_lcFalse|clupus",
"kmerseek|protein20_k8_lcFalse|ecoli",
"kmerseek|protein20_k8_lcFalse|fly",
"kmerseek|protein20_k8_lcFalse|mdomestica",
"kmerseek|protein20_k8_lcFalse|mouse",
"kmerseek|protein20_k8_lcFalse|ptroglodytes",
"kmerseek|protein20_k8_lcFalse|rnorvegicus",
"kmerseek|protein20_k8_lcFalse|worm",
"kmerseek|protein20_k8_lcFalse|xtropicalis",
"kmerseek|protein20_k8_lcFalse|yeast",
"kmerseek|protein20_k8_lcFalse|zebrafish",
"kmerseek|wwmj5_k11_lcFalse|arabidopsis",
"kmerseek|wwmj5_k11_lcFalse|btaurus",
"kmerseek|wwmj5_k11_lcFalse|chicken",
"kmerseek|wwmj5_k11_lcFalse|ciona",
"kmerseek|wwmj5_k11_lcFalse|clupus",
"kmerseek|wwmj5_k11_lcFalse|ecoli",
"kmerseek|wwmj5_k11_lcFalse|fly",
"kmerseek|wwmj5_k11_lcFalse|mdomestica",
"kmerseek|wwmj5_k11_lcFalse|mouse",
"kmerseek|wwmj5_k11_lcFalse|ptroglodytes",
"kmerseek|wwmj5_k11_lcFalse|rnorvegicus",
"kmerseek|wwmj5_k11_lcFalse|worm",
"kmerseek|wwmj5_k11_lcFalse|xtropicalis",
"kmerseek|wwmj5_k11_lcFalse|yeast",
"kmerseek|wwmj5_k11_lcFalse|zebrafish",
"kmerseek|wwmj5_k12_lcFalse|arabidopsis",
"kmerseek|wwmj5_k12_lcFalse|btaurus",
"kmerseek|wwmj5_k12_lcFalse|chicken",
"kmerseek|wwmj5_k12_lcFalse|ciona",
"kmerseek|wwmj5_k12_lcFalse|clupus",
"kmerseek|wwmj5_k12_lcFalse|ecoli",
"kmerseek|wwmj5_k12_lcFalse|fly",
"kmerseek|wwmj5_k12_lcFalse|mdomestica",
"kmerseek|wwmj5_k12_lcFalse|mouse",
"kmerseek|wwmj5_k12_lcFalse|ptroglodytes",
"kmerseek|wwmj5_k12_lcFalse|rnorvegicus",
"kmerseek|wwmj5_k12_lcFalse|worm",
"kmerseek|wwmj5_k12_lcFalse|xtropicalis",
"kmerseek|wwmj5_k12_lcFalse|yeast",
"kmerseek|wwmj5_k12_lcFalse|zebrafish",
"kmerseek|wwmj5_k14_lcFalse|arabidopsis",
"kmerseek|wwmj5_k14_lcFalse|btaurus",
"kmerseek|wwmj5_k14_lcFalse|chicken",
"kmerseek|wwmj5_k14_lcFalse|ciona",
"kmerseek|wwmj5_k14_lcFalse|clupus",
"kmerseek|wwmj5_k14_lcFalse|ecoli",
"kmerseek|wwmj5_k14_lcFalse|fly",
"kmerseek|wwmj5_k14_lcFalse|mdomestica",
"kmerseek|wwmj5_k14_lcFalse|mouse",
"kmerseek|wwmj5_k14_lcFalse|ptroglodytes",
"kmerseek|wwmj5_k14_lcFalse|rnorvegicus",
"kmerseek|wwmj5_k14_lcFalse|worm",
"kmerseek|wwmj5_k14_lcFalse|xtropicalis",
"kmerseek|wwmj5_k14_lcFalse|yeast",
"kmerseek|wwmj5_k14_lcFalse|zebrafish",
"kmerseek|wwmj5_k15_lcFalse|arabidopsis",
"kmerseek|wwmj5_k15_lcFalse|btaurus",
"kmerseek|wwmj5_k15_lcFalse|chicken",
"kmerseek|wwmj5_k15_lcFalse|ciona",
"kmerseek|wwmj5_k15_lcFalse|clupus",
"kmerseek|wwmj5_k15_lcFalse|ecoli",
"kmerseek|wwmj5_k15_lcFalse|fly",
"kmerseek|wwmj5_k15_lcFalse|mdomestica",
"kmerseek|wwmj5_k15_lcFalse|mouse",
"kmerseek|wwmj5_k15_lcFalse|ptroglodytes",
"kmerseek|wwmj5_k15_lcFalse|rnorvegicus",
"kmerseek|wwmj5_k15_lcFalse|worm",
"kmerseek|wwmj5_k15_lcFalse|xtropicalis",
"kmerseek|wwmj5_k15_lcFalse|yeast",
"kmerseek|wwmj5_k15_lcFalse|zebrafish",
"mmseqs2_iterative|s7|arabidopsis",
"mmseqs2_iterative|s7|btaurus",
"mmseqs2_iterative|s7|chicken",
"mmseqs2_iterative|s7|ciona",
"mmseqs2_iterative|s7|clupus",
"mmseqs2_iterative|s7|ecoli",
"mmseqs2_iterative|s7|fly",
"mmseqs2_iterative|s7|mdomestica",
"mmseqs2_iterative|s7|mouse",
"mmseqs2_iterative|s7|ptroglodytes",
"mmseqs2_iterative|s7|rnorvegicus",
"mmseqs2_iterative|s7|worm",
"mmseqs2_iterative|s7|xtropicalis",
"mmseqs2_iterative|s7|yeast",
"mmseqs2_iterative|s7|zebrafish",
"mmseqs2_seqseq|s7|arabidopsis",
"mmseqs2_seqseq|s7|btaurus",
"mmseqs2_seqseq|s7|chicken",
"mmseqs2_seqseq|s7|ciona",
"mmseqs2_seqseq|s7|clupus",
"mmseqs2_seqseq|s7|ecoli",
"mmseqs2_seqseq|s7|fly",
"mmseqs2_seqseq|s7|mdomestica",
"mmseqs2_seqseq|s7|mouse",
"mmseqs2_seqseq|s7|ptroglodytes",
"mmseqs2_seqseq|s7|rnorvegicus",
"mmseqs2_seqseq|s7|worm",
"mmseqs2_seqseq|s7|xtropicalis",
"mmseqs2_seqseq|s7|yeast",
"mmseqs2_seqseq|s7|zebrafish",
"prostt5|3di_from_seq|arabidopsis",
"prostt5|3di_from_seq|btaurus",
"prostt5|3di_from_seq|chicken",
"prostt5|3di_from_seq|ciona",
"prostt5|3di_from_seq|clupus",
"prostt5|3di_from_seq|ecoli",
"prostt5|3di_from_seq|fly",
"prostt5|3di_from_seq|mdomestica",
"prostt5|3di_from_seq|mouse",
"prostt5|3di_from_seq|ptroglodytes",
"prostt5|3di_from_seq|rnorvegicus",
"prostt5|3di_from_seq|worm",
"prostt5|3di_from_seq|xtropicalis",
"prostt5|3di_from_seq|yeast",
"prostt5|3di_from_seq|zebrafish"
],
"source": {
"repo": "seanome/2024-kmerseek-analysis",
"commit": "4a4b11714ddb740f8a7e324058b26bee8fb35af4",
"commit_date": "2026-10-15T13:12:56Z",
"path": "results/leaderboard",
"copied_at": "2026-10-15T13:44:05Z",
"sha256": {
"results.parquet": "0c0cf94b5fc40587cab2ffbf7aaf84df9b5475037cc0d818ad2f452a9c73a837",
"compute.parquet": "8a47ba2123c60cbb41b4833c9f96661934369137b72c5d81ef0808c98247e435",
"coverage.md": "c10b26730d8dc44b16120bd2f6ee87eb8ed0db3efa40398b339ddac0b0cb7781",
"provenance.json": "22e54f206354e42208f8a78c4f4827f980ac1db2ce13153f2b077274552e4141",
"inventory.md": "8dc7040a38cf06af126bd08211edf1f6055c69fe9ac2b4088c6ba8f7f90e6c71",
"pileup/regions.parquet": "e97701d2fcb601babe25c7d5c6c82760ea19e460e9bc1d555fe5f8f69cb4d6d8",
"pileup/calls.parquet": "41bc1f6db7bf54f00370b11db2ffed61031d90a42895aa1697be26fc449ea958",
"pileup/provenance.json": "5ed6e70dd9e82b5200f089b9da3afc62d0a10cc6a51da86715f5f26d3aac9b9e"
},
"pileup_commit": "39d81ec90815cacbf3744199d1fa8e99ab28c6f4"
},
"terms": {
"th": {
"fmax": "Fmax. Does the tool find the real domains and features without adding wrong ones? Fmax balances the two at the tool's best score cutoff. 1 is perfect; 0 means it found none.In detail: The best balance of precision and recall at any one score cutoff, with both worked out protein by protein and averaged. Precision is the share of calls that are correct; recall is the share of true annotations found. 0 to 1, higher is better. how it works →",
"auprc": "AUPRC. Line up every call the tool makes, most confident first. AUPRC asks how well the correct calls stay near the top of that list, whatever cutoff you pick. 1 is perfect; 0 means none are correct.In detail: Area under the precision-recall curve: precision summed over every score cutoff, weighted by the recall gained there. It pools every call of every protein into one list. 0 to 1, higher is better. how it works →",
"iou": "Median IoU. For the calls that are right, how closely the start and end match the real domain. 1 means exactly the same residues; 0.5 means half of the residues the two cover together are shared.In detail: How well a correct call's ends match the true region. IoU is the residues the call and the region share divided by the residues either covers: 1 is a perfect match. The median is the middle IoU over all correct calls. how it works →",
"n": "True instances. How many known domains or features the human proteins have here. A tool can find at most this many.In detail: The number of known annotations on the human proteins in this slice, whether or not the relative could supply them. Recall in Fmax is counted out of these. how it works →",
"cpu": "Core-hours per 1,000 queries. How much computer time the search took for 1,000 human proteins against one relative. Lower is cheaper.In detail: Cores the search reserved × its wall time, for the search alone, divided by the number of relatives searched and scaled to 1,000 human proteins. A task that sat partly idle still counts all its cores. Less is cheaper. how it works →",
"cpu_rep": "CPU-h reported. Computer time the tool's authors report on their own hardware. None sent yet.In detail: CPU-hours per 1,000 queries as reported by a tool's submitter, on hardware they name. None have been submitted yet. how it works →",
"ram": "Peak RAM. The most memory the search needed at one time. A computer with less memory than this cannot run it.In detail: The largest resident memory, in GB, of any of the search's tasks, from the run's task records. Memory is not priced in the cost. how it works →",
"gpu": "GPU-hours. Time on a graphics card (GPU). No search here used one.In detail: GPU time the search used, per 1,000 queries. No search here used a GPU. ProstT5 used one to predict 3Di shape letters while building its databases; that time is on its card. how it works →",
"cost": "Estimated cost. What the search would cost, in US dollars, to annotate 1,000 proteins against one relative at cloud prices. You can change the prices. Lower is cheaper.In detail: Estimated cost in US dollars per 1,000 queries: core-hours × r_cpu + GPU-hours × r_gpu, where r_cpu and r_gpu are prices per hour. The default prices are AWS on-demand rates. how it works →",
"calls": "Raw or dedup. Raw counts every call. Dedup counts a domain once, even when several of the relative's proteins point to it.In detail: Raw keeps every call a tool makes. Dedup merges calls of the same family on the same protein that overlap with an IoU of 0.5 or more, keeping the highest-scoring one, so one domain hit by many of the relative's proteins counts once. how it works →",
"wall": "Wall-clock hours per 1,000 queries. How long you wait for the search to finish, for 1,000 proteins against one relative.In detail: How long the search took from start to finish on the cores it was given (4 to 16), per relative searched, scaled to 1,000 human proteins. Less is faster. how it works →",
"db": "Database build. Time to get the relative's proteins ready to search. It is done once, before any search.In detail: Core-hours to build one relative's search database, done once before any search. The mean over the builds the run's task records hold. Not in the per-query cost. how it works →",
"measured": "measured. We timed it ourselves, on Stanford's Sherlock computer cluster.In detail: Measured on Stanford's Sherlock cluster, from the run's own task records. how it works →",
"reported": "reported. The tool's authors timed it on their own computers.In detail: Reported by the tool's submitter, on the hardware they name. None yet. how it works →"
},
"short": {
"fmax": "right calls, few wrong ones",
"auprc": "right calls stay on top",
"iou": "how well the ends line up",
"n": "known annotations to find",
"cpu": "computer time used",
"cpu_rep": "the authors' own figure",
"ram": "memory needed",
"gpu": "graphics-card time",
"cost": "price for 1,000 proteins",
"calls": "count each domain once?",
"wall": "time to finish",
"db": "set-up time",
"measured": "timed by us",
"reported": "timed by the authors"
},
"filters": {
"calls": "Raw or dedup. Raw counts every call. Dedup counts a domain once, even when several of the relative's proteins point to it.In detail: Raw keeps every call a tool makes. Dedup merges calls of the same family on the same protein that overlap with an IoU of 0.5 or more, keeping the highest-scoring one, so one domain hit by many of the relative's proteins counts once. how it works →"
},
"axes": {
"fmax": "Fmax. Does the tool find the real domains and features without adding wrong ones? Fmax balances the two at the tool's best score cutoff. 1 is perfect; 0 means it found none.In detail: The best balance of precision and recall at any one score cutoff, with both worked out protein by protein and averaged. Precision is the share of calls that are correct; recall is the share of true annotations found. 0 to 1, higher is better. how it works →",
"auprc": "AUPRC. Line up every call the tool makes, most confident first. AUPRC asks how well the correct calls stay near the top of that list, whatever cutoff you pick. 1 is perfect; 0 means none are correct.In detail: Area under the precision-recall curve: precision summed over every score cutoff, weighted by the recall gained there. It pools every call of every protein into one list. 0 to 1, higher is better. how it works →",
"iou": "Median IoU. For the calls that are right, how closely the start and end match the real domain. 1 means exactly the same residues; 0.5 means half of the residues the two cover together are shared.In detail: How well a correct call's ends match the true region. IoU is the residues the call and the region share divided by the residues either covers: 1 is a perfect match. The median is the middle IoU over all correct calls. how it works →",
"cpu": "Core-hours per 1,000 queries. How much computer time the search took for 1,000 human proteins against one relative. Lower is cheaper.In detail: Cores the search reserved × its wall time, for the search alone, divided by the number of relatives searched and scaled to 1,000 human proteins. A task that sat partly idle still counts all its cores. Less is cheaper. how it works →",
"cost": "Estimated cost. What the search would cost, in US dollars, to annotate 1,000 proteins against one relative at cloud prices. You can change the prices. Lower is cheaper.In detail: Estimated cost in US dollars per 1,000 queries: core-hours × r_cpu + GPU-hours × r_gpu, where r_cpu and r_gpu are prices per hour. The default prices are AWS on-demand rates. how it works →",
"wall": "Wall-clock hours per 1,000 queries. How long you wait for the search to finish, for 1,000 proteins against one relative.In detail: How long the search took from start to finish on the cores it was given (4 to 16), per relative searched, scaled to 1,000 human proteins. Less is faster. how it works →",
"ram": "Peak RAM. The most memory the search needed at one time. A computer with less memory than this cannot run it.In detail: The largest resident memory, in GB, of any of the search's tasks, from the run's task records. Memory is not priced in the cost. how it works →",
"db": "Database build. Time to get the relative's proteins ready to search. It is done once, before any search.In detail: Core-hours to build one relative's search database, done once before any search. The mean over the builds the run's task records hold. Not in the per-query cost. how it works →"
}
}
},
"results": {
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