Ecosyste.ms: Docker

An open API service providing dependency metadata for docker images.

Package Usage : maven : htsjdk:htsjdk

Explore the latest package usage data for htsjdk:htsjdk in the maven ecosystem, including detailed information on package dependencies and their usage.

Total dependents: 150
Total downloads: 42,831,238

More details on packages.ecosyste.ms - JSON

broadinstitute/genomes-in-the-cloud 2.4.0-1501007820

Genomes-in-the-cloud is a genomic analysis pipeline project developed by the Broad Institute.

  • version: 2.1.0.gs
Latest release: about 7 years ago - 40,948,348 downloads - 951 dependencies
broadinstitute/picard 3.1.1

A set of Java command line tools for manipulating high-throughput sequencing (HTS) data and formats.

  • version: 3.0.5, 3.0.1, 4.0.2
Latest release: 10 months ago - 1,091,512 downloads - 640 dependencies
biocontainers/picard-tools v2.18.25dfsg-2-deb_cv1

  • version: 2.18.2
Latest release: almost 5 years ago - 208,967 downloads - 711 dependencies
vanallenlab/sv-pipeline-base gnomad_rf_abd6c1

  • version: 2.23.0
Latest release: over 1 year ago - 88,219 downloads - 1,101 dependencies
dhspence/docker-genomic-analysis 122121

From Chris Miller's example

  • version: 2.21.0
Latest release: over 2 years ago - 19,678 downloads - 1,294 dependencies
biocontainers/beagle v5.0-180928dfsg-1-deb_cv1

  • version: 2.18.2
Latest release: about 5 years ago - 9,481 downloads - 533 dependencies
biocontainers/artemis v17.0.1dfsg-2-deb_cv1

  • version: 2.18.2
Latest release: about 5 years ago - 9,505 downloads - 887 dependencies
biocontainers/unicycler v0.4.7dfsg-2-deb_cv1

  • version: 2.18.2
Latest release: almost 5 years ago - 8,525 downloads - 703 dependencies
biocontainers/chromhmm v1.18dfsg-1-deb_cv1

  • version: 2.18.2
Latest release: about 5 years ago - 8,427 downloads - 587 dependencies
biocontainers/pilon v1.23dfsg-1-deb_cv1

  • version: 2.18.2
Latest release: almost 5 years ago - 8,128 downloads - 469 dependencies
biocontainers/paleomix v1.2.13.3-1-deb_cv1

  • version: 2.18.2
Latest release: almost 5 years ago - 7,507 downloads - 1,167 dependencies
biocontainers/surankco v0.0.r5dfsg-2-deb_cv1

  • version: 2.18.2
Latest release: almost 5 years ago - 7,465 downloads - 857 dependencies
dhspence/docker-trimgalore latest

trimgalore, cutadapt, on top of docker-genomic-analysis

  • version: 2.11.0
Latest release: over 5 years ago - 3,649 downloads - 733 dependencies
dhspence/docker-amplicon-readcount latest

GATK plus custom annotation script

  • version: 2.4.1
Latest release: about 7 years ago - 3,595 downloads - 716 dependencies
dhspence/docker-spikein v1.1

  • version: 2.11.0
Latest release: almost 6 years ago - 3,239 downloads - 729 dependencies
dhspence/docker-star latest

STAR plus helper script plus samtools

  • version: 2.11.0
Latest release: over 6 years ago - 1,972 downloads - 729 dependencies
dhspence/docker-haloplexqc latest

Haloplex QC scripts

  • version: 2.11.0
Latest release: almost 7 years ago - 1,801 downloads - 730 dependencies
dhspence/docker-macs2 latest

  • version: 2.11.0
Latest release: about 6 years ago - 1,767 downloads - 730 dependencies
dhspence/docker-regtools latest

  • version: 2.11.0
Latest release: over 6 years ago - 1,189 downloads - 732 dependencies
intelliseqngs/task_vcf-anno-scores 1.2.1-chrY-and-the-rest

  • version: 3.0.4
Latest release: over 1 year ago - 57,667 downloads - 633 dependencies
intelliseqngs/vcf-annotation scores-grch38_v0.2-chr19

  • version: 2.20.1
Latest release: over 4 years ago - 11,773 downloads - 531 dependencies
ocdr/ds-apps test2

  • version: 2.24.1
Latest release: 9 months ago - 3,555 downloads - 3,778 dependencies
dhspence/docker-subread 1.0

  • version: 2.11.0
Latest release: almost 6 years ago - 674 downloads - 729 dependencies
biocontainers/gatk v3.4_cv1

  • version: 1.139
Latest release: over 6 years ago - 896 downloads - 1,201 dependencies
intelliseqngs/annotsv GRCh38_1.0.0

  • version: 2.18.2
Latest release: over 4 years ago - 441 downloads - 392 dependencies
dhspence/docker-sicer latest

  • version: 2.16.0
Latest release: over 5 years ago - 765 downloads - 1,147 dependencies
intelliseqngs/annotsv-grch38 1.0.8

  • version: 2.18.2
Latest release: over 1 year ago - 394 downloads - 449 dependencies
vanallenlab/sv-pipeline-qc gnomad_v3_qc

  • version: 2.23.0
Latest release: almost 2 years ago - 338 downloads - 1,373 dependencies
dhspence/docker-methpipe latest

  • version: 2.11.0
Latest release: over 5 years ago - 321 downloads - 735 dependencies
intelliseqngs/resources longranger_v0.1

  • version: 2.14.3
Latest release: about 4 years ago - 312 downloads - 1,305 dependencies
dhspence/docker-basestation latest

  • version: 2.16.0
Latest release: over 5 years ago - 308 downloads - 1,132 dependencies
ctomlins/picardmetrics latest

  • version: 1.126
Latest release: almost 3 years ago - 503 downloads - 574 dependencies
qdidiscoveryservices/py3_cellranger 6.1.2

  • version: 2.18.2
Latest release: almost 3 years ago - 302 downloads - 1,375 dependencies
y9ch/bidseq rice

🧪 BID-seq for detecting pseudouridine modification on RNA

  • version: 2.19.0
Latest release: over 1 year ago - 588 downloads - 251 dependencies
dhspence/docker-dss latest

  • version: 2.16.0
Latest release: about 4 years ago - 367 downloads - 1,127 dependencies
dhspence/docker-ichor latest

  • version: 2.11.0
Latest release: about 6 years ago - 236 downloads - 961 dependencies
intelliseqngs/astrolabe 1.0.0

  • version: 2.19.0-SNAPSHOT
Latest release: almost 4 years ago - 188 downloads - 1,097 dependencies
dmiller15/vardictjava 1.7.0

  • version: 2.8.0
Latest release: almost 2 years ago - 174 downloads - 525 dependencies
qdidiscoveryservices/gatk-v2461_bwa_aws_vardict latest

  • version: 2.8.0, 2.21.1
Latest release: over 1 year ago - 131 downloads - 1,081 dependencies
dhspence/docker-minimap2 111621

  • version: 2.11.0
Latest release: almost 3 years ago - 147 downloads - 734 dependencies
dhspence/docker-manta 1.5.0

  • version: 2.16.0
Latest release: almost 6 years ago - 126 downloads - 1,191 dependencies
trust1/ubuntu OMGv001

Target Capture Cloud Platform (TCCP) Oz Mammals Genomics Phylogenomics aka OMG pipeline

  • version: 2.8.1
Latest release: over 3 years ago - 123 downloads - 805 dependencies
dhspence/docker-hiccompare latest

  • version: 2.16.0
Latest release: over 3 years ago - 113 downloads - 1,271 dependencies
dhspence/docker-skewer latest

base image with skewer for read trimming

  • version: 2.11.0
Latest release: almost 6 years ago - 76 downloads - 279 dependencies
ctomlins/fastqc latest

  • version: 2.24.1-SNAPSHOT
Latest release: over 3 years ago - 504 downloads - 359 dependencies
kentwait/gatk latest

Dockerized GATK for genomics analysis

  • version: 2.7.0, 2.8.1
Latest release: over 7 years ago - 68 downloads - 371 dependencies
jlund256/xeno_rna-seq latest

  • version: 3.0.0
Latest release: over 1 year ago - 1,351 downloads - 902 dependencies
dhspence/docker-mosdepth latest

  • version: 2.11.0
Latest release: over 5 years ago - 60 downloads - 754 dependencies
dhspence/docker-vep 93

  • version: 2.16.0
Latest release: over 5 years ago - 53 downloads - 1,191 dependencies
evolbioinfo/igv v2.9.0

  • version: 2.23.0
Latest release: over 3 years ago - 42 downloads - 1,009 dependencies
dhspence/docker-concordance ngv3-exome-GRCh37

GATK, Picard, and dbSNP files for tumor/normal concordance checking

  • version: 2.8.0, 2.4.1
Latest release: almost 7 years ago - 38 downloads - 1,012 dependencies
intelliseqngs/picard v2.21.4

  • version: 2.20.3
Latest release: almost 5 years ago - 35 downloads - 644 dependencies
chgyi/metaware 0.1

  • version: 2.14.0
Latest release: almost 6 years ago - 34 downloads - 301 dependencies
dolphinnext/beenet 1.0

  • version: 2.19.0-13-g0335266-SNAPSHOT
Latest release: almost 2 years ago - 35 downloads - 345 dependencies
dhspence/docker-cle-cwl latest

from mgibio with cwl in there too

  • version: 2.4.1
Latest release: almost 7 years ago - 33 downloads - 1,402 dependencies
dmiller15/annotsv 3.1.1

  • version: 2.18.2
Latest release: over 2 years ago - 29 downloads - 284 dependencies
bryoinformatics/rna-seq v1.0.0

A container for the RNAseq pipeline (https://github.com/bryoinformatics/RNAseq).

  • version: 2.24.1-SNAPSHOT
Latest release: over 1 year ago - 140 downloads - 188 dependencies
broadinstitute/gatk-test 4.0-prerelease-1efafd2b5

  • version: 2.13.2
Latest release: over 6 years ago - 23 downloads - 1,213 dependencies
prangannath/rna_seq latest

Container for EvolOMICS RNA_Seq pipeline

  • version: 2.24.1
Latest release: almost 2 years ago - 26 downloads - 1,382 dependencies
mrkevindc/add latest

  • version: 3.0.1
Latest release: over 1 year ago - 21 downloads - 621 dependencies
dhspence/docker-annotsv latest

  • version: 2.18.2
Latest release: over 2 years ago - 21 downloads - 563 dependencies
ctomlins/nanopore-rna-pipeline latest

  • version: 2.18.2
Latest release: almost 3 years ago - 21 downloads - 717 dependencies
qdidiscoveryservices/gatk-v2461_bwa_vardict latest

  • version: 2.21.1, 2.8.0
Latest release: over 1 year ago - 15 downloads - 1,069 dependencies
bryoinformatics/variant-id v1.0.0

A container for the variant-ID pipeline (https://github.com/bryoinformatics/variant-ID).

  • version: 2.24.1-SNAPSHOT
Latest release: over 1 year ago - 93 downloads - 479 dependencies
aminhaghparast/genomics21 2.12

  • version: 2.18.2
Latest release: over 1 year ago - 12 downloads - 522 dependencies
mqmnd/fastqc amd-0.11.9

  • version: 2.24.1
Latest release: over 1 year ago - 97 downloads - 315 dependencies
dhspence/docker-wg-basestation latest

  • version: 2.16.0
Latest release: almost 4 years ago - 13 downloads - 1,126 dependencies
ctomlins/pilon warrenlab

  • version: 1.130
Latest release: over 6 years ago - 194,247 downloads - 319 dependencies
pedrojf/annotsv 3.2.3

  • version: 2.18.2
Latest release: over 1 year ago - 197 downloads - 356 dependencies
evolomicsmbbt/rna_seq latest

  • version: 2.24.1
Latest release: over 1 year ago - 62 downloads - 412 dependencies
shahcompbio/igver latest

  • version: 3.0.0
Latest release: over 1 year ago - 227 downloads - 258 dependencies
gene110/vep_filter v07

  • version: 2.8.1
Latest release: about 3 years ago - 10 downloads - 1,164 dependencies
testalab/annotsv v3.2.3

  • version: 2.18.2
Latest release: over 1 year ago - 15 downloads - 192 dependencies
anniewangly/large_deletion latest

  • version: 2.21.1
Latest release: over 1 year ago - 11 downloads - 184 dependencies
dhspence/docker-demux latest

  • version: 2.11.0
Latest release: almost 4 years ago - 9 downloads - 295 dependencies
dhspence/docker-genomic-analysis-lite 102321

  • version: 2.21.0
Latest release: almost 3 years ago - 10 downloads - 397 dependencies
qdidiscoveryservices/lightspeed-clcworkflowengine latest

  • version: 2.24.1
Latest release: over 1 year ago - 10 downloads - 149 dependencies
mrkevindc/umis latest

  • version: 2.24.1-26-ga38c78d-SNAPSHOT, 2.21.1
Latest release: over 1 year ago - 14 downloads - 373 dependencies
lucifer001/javasarala-dev-ab123 latest

  • version: 2.24.1
Latest release: over 1 year ago - 10 downloads - 2,047 dependencies
nanjiang/apollo latest

  • version: 2.23.0
Latest release: over 1 year ago - 9 downloads - 695 dependencies
lucifer001/javasarala-be-test latest

  • version: 2.24.1
Latest release: over 1 year ago - 9 downloads - 2,047 dependencies
jieliu4wustl/wustl v0.1_20230907

  • version: 2.18.2
Latest release: about 1 year ago - 4,483 downloads - 1,124 dependencies
carlokroll/exomiser-cli 13.2.0

  • version: 2.24.1
Latest release: over 1 year ago - 41 downloads - 75 dependencies
jinlongru/webin-cli latest

  • version: 2.24.1
Latest release: over 1 year ago - 13 downloads - 186 dependencies
lucifer001/javasarala-be-test1 latest

  • version: 2.24.1
Latest release: over 1 year ago - 9 downloads - 2,047 dependencies