Mercurial > repos > iuc > funannotate_sort

annotate test-data/predict_bam/Genus_species.stats.json @ 7:54961e026fe4 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/funannotate commit 90acc0e23230b2e29e1d38a90bca4009c84c7e67
author iuc
date Fri, 20 Oct 2023 10:09:10 +0000
parents 998b719a94cb
children
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1 {
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2 "format": "annotation",
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3 "command": "/home/abretaud/miniconda3/envs/__funannotate@1.8.7/bin/funannotate predict --input /tmp/tmp2z22js7e/files/c/c/3/dataset_cc3f66b5-ec9b-4669-93d6-4ddeac0e33c1.dat --out output --database /home/abretaud/.planemo/planemo_tmp_z_14xthq/test-data/funannotate_db --species Genus species --isolate --strain --organism other --ploidy 1 --SeqCenter CFMR --SeqAccession 12345 --name FUN_ --numbering 1 --rna_bam /tmp/tmp2z22js7e/files/9/6/5/dataset_965b5091-b838-4f4a-8ec8-9fb84c12cdc5.dat --transcript_evidence /tmp/tmp2z22js7e/files/d/a/e/dataset_daea4ce7-3191-40eb-ad83-b35e9e058d46.dat --p2g_pident 80 --p2g_prefilter diamond --min_training_models 3 --busco_seed_species fly --busco_db insecta --evm-partition-interval 1500 --min_intronlen 10 --max_intronlen 3000 --min_protlen 50 --repeat_filter overlap blast --cpus 1",
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4 "organism": "Genus_species",
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5 "software": {
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6 "name": "funannotate",
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7 "version": "1.8.7",
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8 "date": "2021-07-22",
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9 "resources": {
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12 "version": "12.0",
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13 "date": "2017-10-04",
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16 "uniprot": {
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22 "dbCAN": {
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24 "version": "9.0",
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25 "date": "2020-08-04",
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26 "num-records": "641"
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28 "pfam": {
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33 },
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34 "repeats": {
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40 "go": {
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41 "type": "text",
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48 "version": "1.4",
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51 },
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52 "interpro": {
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53 "type": "xml",
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54 "version": "86.0",
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56 "num-records": "38913"
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57 },
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58 "busco_outgroups": {
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59 "type": "outgroups",
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63 },
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64 "gene2product": {
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65 "type": "text",
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69 }
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71 },
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72 "assembly": {
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73 "num_contigs": 4,
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74 "length": 227430,
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81 },
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82 "annotation": {
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83 "genes": 18,
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89 "avg_gene_length": 2775.33,
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90 "transcript-level": {
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91 "CDS_transcripts": 18,
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101 "total_cds_exons": 54,
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102 "multiple_exon_transcript": 15,
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103 "single_exon_transcript": 3,
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105 "avg_protein_length": 571.83,
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106 "functional": {
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115 },
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116 "pct_exon_overlap_transcript_evidence": 31.48,
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117 "pct_exon_overlap_protein_evidence": 9.26
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118 }
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119 }
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120 }