Ecosyste.ms: Docker

An open API service providing dependency metadata for docker images.

Package Usage : deb : ubuntu/bedtools

Explore the latest package usage data for ubuntu/bedtools in the deb ecosystem, including detailed information on package dependencies and their usage.

Total dependents: 158
Total downloads: 32,506,369

More details on packages.ecosyste.ms - JSON

broadinstitute/gatk 4.5.0.0

Official release repository for GATK versions 4.x

  • version: 2.26.0 dfsg-5, 2.30.0 dfsg-2ubuntu0.1
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: 11 months ago - 31,988,536 downloads - 912 dependencies
broadinstitute/gatk-nightly 2024-01-06-4.5.0.0-3-gb68fadc5f-NIGHTLY-SNAPSHOT

Official repository for nightly development builds of the GATK

  • version: 2.26.0 dfsg-5, 2.30.0 dfsg-2ubuntu0.1
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: 11 months ago - 86,066 downloads - 912 dependencies
vanallenlab/sv-pipeline-base gnomad_rf_abd6c1

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 2 years ago - 88,219 downloads - 1,101 dependencies
dhspence/docker-genomic-analysis 122121

From Chris Miller's example

  • version: 2.27.1 dfsg-4ubuntu1
  • arch: amd64
  • distro: ubuntu-20.04
Latest release: almost 3 years ago - 19,678 downloads - 1,294 dependencies
dhspence/docker-baseimage latest

samtools, picard, bedtools

  • version: 2.27.1 dfsg-4ubuntu1
  • arch: amd64
  • distro: ubuntu-20.04
Latest release: about 2 years ago - 11,540 downloads - 457 dependencies
broadinstitute/gatk-dev NVSCOREVARIANTS-PREVIEW-SNAPSHOT

GATK Development

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: about 2 years ago - 6,653 downloads - 752 dependencies
vanallenlab/sv-base-mini d975c18

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: over 1 year ago - 6,267 downloads - 134 dependencies
kbase/kbase sdkbase.latest

  • version: 2.17.0-1
  • arch: amd64
  • distro: ubuntu-14.04
Latest release: over 6 years ago - 4,258 downloads - 2,934 dependencies
intelliseqngs/gatk-4.1.7.0-hg38 1.0.1

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: over 4 years ago - 38,602 downloads - 842 dependencies
intelliseqngs/task_bam-bsqr 1.2.2

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 2 years ago - 30,911 downloads - 1,038 dependencies
intelliseqngs/task_bam-filter-mismatch 1.4.1

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 2 years ago - 21,820 downloads - 1,138 dependencies
intelliseqngs/gatk dbsnp-genotyping_grch38-no-alt-analysis-set_1.0.4-chrY-and-the-rest

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 3 years ago - 12,626 downloads - 948 dependencies
intelliseqngs/gatk-4.1.7.0 1.0.4

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: over 4 years ago - 10,089 downloads - 1,006 dependencies
intelliseqngs/task_bam-metrics 1.2.8

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: about 4 years ago - 7,556 downloads - 1,007 dependencies
biocontainers/oncocnv v7.0_cv2

  • version: 2.27.1 dfsg-4ubuntu1
  • arch: amd64
  • distro: ubuntu-20.04
Latest release: about 2 years ago - 12,111 downloads - 307 dependencies
intelliseqngs/task_bam-metrics-grch38-no-alt 1.0.2

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 2 years ago - 5,097 downloads - 1,140 dependencies
intelliseqngs/gatk-4.1.6.0-hg38 1.1.0

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: over 4 years ago - 4,290 downloads - 842 dependencies
intelliseqngs/gatk-4.1.6.0 2.0.2

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: over 4 years ago - 3,337 downloads - 842 dependencies
intelliseqngs/task_mt-varcall-mutect2 1.1.2

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: over 1 year ago - 2,784 downloads - 1,038 dependencies
intelliseqngs/task_genotype-gvcf-on-dbsnp-positions-grch38-no-alt 1.0.2-chrY-and-the-rest

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: over 1 year ago - 2,314 downloads - 1,040 dependencies
intelliseqngs/gatk-4.2.0.0 1.0.0

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: over 3 years ago - 2,311 downloads - 957 dependencies
intelliseqngs/task_vcf-concat 1.0.4

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: over 1 year ago - 2,566 downloads - 1,043 dependencies
intelliseqngs/gatk-4.1.9.0 1.0.0

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 4 years ago - 2,222 downloads - 967 dependencies
intelliseqngs/task_vcf-anno-cosmic 2.0.0

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: about 1 year ago - 2,498 downloads - 346 dependencies
intelliseqngs/task_mt-realign 1.1.2

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: over 1 year ago - 2,028 downloads - 1,038 dependencies
intelliseqngs/task_bam-gatk-m2 1.1.2

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 2 years ago - 1,949 downloads - 1,038 dependencies
intelliseqngs/task_vcf-varcall-metrics-hg38 1.1.2

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: over 1 year ago - 1,947 downloads - 1,038 dependencies
intelliseqngs/gatk-4.2.0.0-grch38-no-alt 1.1.0

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: about 3 years ago - 1,698 downloads - 957 dependencies
intelliseqngs/task_vcf-prepare 1.0.3

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: over 1 year ago - 914 downloads - 1,038 dependencies
dhspence/docker-gassembly latest

  • version: 2.27.1 dfsg-4ubuntu1
  • arch: amd64
  • distro: ubuntu-20.04
Latest release: about 2 years ago - 805 downloads - 396 dependencies
intelliseqngs/gatk-4.1.7.0-grch38-no-alt 1.0.1

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: over 4 years ago - 640 downloads - 842 dependencies
intelliseqngs/gatk-4.2.4.1-grch38-no-alt 1.0.0

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 3 years ago - 614 downloads - 946 dependencies
kbase/kbase_base latest

KBase Base Image containing Core services and runtime

  • version: 2.17.0-1
  • arch: amd64
  • distro: ubuntu-14.04
Latest release: about 8 years ago - 510 downloads - 3,106 dependencies
kbase/sdkbase latest

  • version: 2.17.0-1
  • arch: amd64
  • distro: ubuntu-14.04
Latest release: almost 8 years ago - 476 downloads - 2,934 dependencies
intelliseqngs/task_bed-to-interval-list 1.1.5

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 2 years ago - 593 downloads - 1,057 dependencies
intelliseqngs/annotsv GRCh38_1.0.0

  • version: 2.27.1 dfsg-4
  • arch: amd64
  • distro: ubuntu-19.10
Latest release: over 4 years ago - 441 downloads - 392 dependencies
biocontainers/mitohifi 3.0.0_cv1

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: over 1 year ago - 3,520 downloads - 559 dependencies
qdidiscoveryservices/gatk-v2461_bwa_aws latest

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 2 years ago - 403 downloads - 849 dependencies
intelliseqngs/annotsv-grch38 1.0.8

  • version: 2.30.0 dfsg-2ubuntu0.1
  • arch: amd64
  • distro: ubuntu-22.04
Latest release: almost 2 years ago - 394 downloads - 449 dependencies
intelliseqngs/gatk-4.2.4.1-hg38 1.0.0

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 3 years ago - 362 downloads - 946 dependencies
vanallenlab/sv-pipeline-qc gnomad_v3_qc

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 2 years ago - 338 downloads - 1,373 dependencies
chrisamiller/nanopack-flair v1.5-7

  • version: 2.27.1 dfsg-4ubuntu1
  • arch: amd64
  • distro: ubuntu-20.04
Latest release: almost 2 years ago - 328 downloads - 372 dependencies
intelliseqngs/task_vcf-concat-beagle 1.1.3

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: over 1 year ago - 364 downloads - 1,041 dependencies
ctomlins/aligners latest

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: about 4 years ago - 314 downloads - 564 dependencies
intelliseqngs/task_vcf-vqsr-snp-recalib-hg38 1.1.2

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: over 1 year ago - 312 downloads - 1,038 dependencies
intelliseqngs/resources longranger_v0.1

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: over 4 years ago - 312 downloads - 1,305 dependencies
intelliseqngs/task_genotype-gvcf-on-dbsnp-positions-hg38 1.0.2-chrY-and-the-rest

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: over 1 year ago - 308 downloads - 1,040 dependencies
intelliseqngs/task_vcf-vqsr-indel-recalib-hg38 1.1.2

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: over 1 year ago - 304 downloads - 1,142 dependencies
intelliseqngs/task_pileup-merge 1.0.2

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: over 1 year ago - 281 downloads - 1,038 dependencies
chrshrrs/vcat-master sh

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 2 years ago - 228 downloads - 693 dependencies
trust1/gatk version0.4.1

Variant Calling Pipeline based on GATK image

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: about 4 years ago - 212 downloads - 965 dependencies
intelliseqngs/astrolabe 1.0.0

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: about 4 years ago - 188 downloads - 1,097 dependencies
intelliseqngs/bcl-to-fq 1.0.2

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 2 years ago - 184 downloads - 1,047 dependencies
intelliseqngs/gatk-4.2.0.0-hg38 1.1.0

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: about 3 years ago - 165 downloads - 1,057 dependencies
gmacari/genomicutils latest

  • version: 2.30.0 dfsg-2ubuntu0.1
  • arch: amd64
  • distro: ubuntu-22.04
Latest release: over 1 year ago - 549 downloads - 520 dependencies
intelliseqngs/smoove-grch38-no-alt 1.1.0

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: about 3 years ago - 194 downloads - 540 dependencies
chgyi/bio 3.5.1

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: about 6 years ago - 158 downloads - 1,077 dependencies
dhspence/docker-guideseq latest

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: about 4 years ago - 139 downloads - 487 dependencies
qdidiscoveryservices/gatk-v2461_bwa_aws_vardict latest

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 2 years ago - 131 downloads - 1,081 dependencies
intelliseqngs/collect-hs-metrics 1.0.0

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: over 4 years ago - 131 downloads - 928 dependencies
intelliseqngs/gatk-4.2.4.1 1.0.1

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 2 years ago - 161 downloads - 1,118 dependencies
testalabgh/downstream signac-1.4.0

  • version: 2.27.1 dfsg-4ubuntu1
  • arch: amd64
  • distro: ubuntu-20.04
Latest release: over 1 year ago - 485 downloads - 3,517 dependencies
intelliseqngs/resources-pgx-polygenic 1.2.4

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: about 1 year ago - 300 downloads - 1,059 dependencies
intelliseqngs/smoove-hg38 1.1.0

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: about 3 years ago - 88 downloads - 540 dependencies
intelliseqngs/task_bam-metrics-hg38 1.0.2

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 2 years ago - 79 downloads - 1,144 dependencies
genomehubs/mitohifi latest

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 2 years ago - 108 downloads - 670 dependencies
intelliseqngs/task_vcf-anno-custom 1.0.1

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: about 4 years ago - 58 downloads - 1,025 dependencies
ctomlins/rna-seq-pipeline latest

  • version: 2.27.1 dfsg-4ubuntu1
  • arch: amd64
  • distro: ubuntu-20.04
Latest release: about 3 years ago - 51 downloads - 498 dependencies
intelliseqngs/task_calibrate-dragstr-model-grch38-no-alt 1.0.1

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: almost 2 years ago - 58 downloads - 1,049 dependencies
intelliseqngs/smoove 1.0.0

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: about 4 years ago - 47 downloads - 540 dependencies
nbutter/gatk_tools latest

GATK and other bioinformatics tools packaged together.

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: over 5 years ago - 44 downloads - 869 dependencies
hoonbiolab/pepatac v1.1

  • version: 2.27.1 dfsg-4ubuntu1
  • arch: amd64
  • distro: ubuntu-20.04
Latest release: about 3 years ago - 43 downloads - 1,213 dependencies
luisas/feelnc 0.1.1

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: about 5 years ago - 38 downloads - 662 dependencies
dhspence/docker-cle-cwl latest

from mgibio with cwl in there too

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: about 7 years ago - 33 downloads - 1,402 dependencies
evolbioinfo/velvet v1.2.10

Short read de novo assembler using de Bruijn graphs http://www.ebi.ac.uk/~zerbino/velvet/

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: about 6 years ago - 33 downloads - 459 dependencies
intelliseqngs/task_imputing-quality 0.0.2

  • version: 2.27.1 dfsg-4ubuntu1
  • arch: amd64
  • distro: ubuntu-20.04
Latest release: over 3 years ago - 30 downloads - 355 dependencies
intelliseqngs/pharmcat-resources 1.1.0

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: over 2 years ago - 31 downloads - 964 dependencies
jpsmith5/peppro latest

  • version: 2.30.0 dfsg-2ubuntu0.1
  • arch: amd64
  • distro: ubuntu-22.04
Latest release: almost 2 years ago - 29 downloads - 1,163 dependencies
skoyamamd/ldsc latest

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: over 2 years ago - 34 downloads - 325 dependencies
dhspence/docker-mocha latest

  • version: 2.29.2 dfsg-3build2
  • arch: amd64
  • distro: ubuntu-20.10
Latest release: over 3 years ago - 27 downloads - 433 dependencies
broadinstitute/gatk-test 4.0-prerelease-1efafd2b5

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: almost 7 years ago - 23 downloads - 1,213 dependencies
intelliseqngs/task_gvcf-genotype-by-vcf 0.0.3

  • version: 2.25.0-1
  • arch: amd64
  • distro: ubuntu-16.04
Latest release: over 4 years ago - 23 downloads - 844 dependencies
intelliseqngs/task_vcf-varcall-metrics-grch38-no-alt 1.1.2

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: over 1 year ago - 26 downloads - 1,038 dependencies
dhspence/docker-merqury 111621

  • version: 2.27.1 dfsg-4ubuntu1
  • arch: amd64
  • distro: ubuntu-20.04
Latest release: about 3 years ago - 22 downloads - 382 dependencies
nciccbr/ccrgb_hlaminer v2

  • version: 2.27.1 dfsg-4ubuntu1
  • arch: amd64
  • distro: ubuntu-20.04
Latest release: over 1 year ago - 96 downloads - 713 dependencies
dhspence/docker-annotsv latest

  • version: 2.27.1 dfsg-4ubuntu1
  • arch: amd64
  • distro: ubuntu-20.04
Latest release: almost 3 years ago - 21 downloads - 563 dependencies
biodancer/nasap latest

write later

  • version: 2.30.0 dfsg-2ubuntu0.1
  • arch: amd64
  • distro: ubuntu-22.04
Latest release: over 2 years ago - 28 downloads - 351 dependencies
ctomlins/nanopore-rna-pipeline latest

  • version: 2.27.1 dfsg-4ubuntu1
  • arch: amd64
  • distro: ubuntu-20.04
Latest release: about 3 years ago - 21 downloads - 717 dependencies
sheddn/bioinformatics-tools latest

  • version: 2.30.0 dfsg-2ubuntu0.1
  • arch: amd64
  • distro: ubuntu-22.04
Latest release: almost 2 years ago - 41 downloads - 2,518 dependencies
biodancer/nasap_performance latest

write later

  • version: 2.27.1 dfsg-4ubuntu1
  • arch: amd64
  • distro: ubuntu-20.04
Latest release: almost 2 years ago - 18 downloads - 2,006 dependencies
qdidiscoveryservices/gatk-v2461_bwa_vardict latest

  • version: 2.26.0 dfsg-5
  • arch: amd64
  • distro: ubuntu-18.04
Latest release: over 1 year ago - 15 downloads - 1,069 dependencies