Ecosyste.ms: Repos

An open API service providing repository metadata for many open source software ecosystems.

Package Usage: conda: gatk

View more package details: https://packages.ecosyste.ms/registries/anaconda.org/packages/gatk

Dependent Repos 14

JetBrains-Research/snakecharm
Plugin for PyCharm / IntelliJ IDEA Platform IDEs which adds support for Snakemake language.
  • 3.8 testData/wrappers_storage/bio/gatk3/printreads/environment.yaml

Size: 2.93 MB - Last synced: 5 days ago - Pushed: 5 days ago

ccmbioinfo/crg2
Research pipeline for exploring clinically relevant genomic variants
  • 3.8 wrappers/gatk3/baserecalibrator/environment.yaml
  • 3.8 wrappers/gatk3/haplotypecaller/environment.yaml
  • 3.8 wrappers/gatk3/indelrealigner/environment.yaml
  • 3.8 wrappers/gatk3/printreads/environment.yaml
  • 3.8 wrappers/gatk3/realignertargetcreator/environment.yaml

Size: 4.48 MB - Last synced: 19 days ago - Pushed: 19 days ago

tdayris/snakemake-wrappers Fork of snakemake/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
  • 3.8.* bio/gatk3/baserecalibrator/environment.yaml
  • 3.8.* bio/gatk3/indelrealigner/environment.yaml
  • 3.8.* bio/gatk3/printreads/environment.yaml
  • 3.8.* bio/gatk3/realignertargetcreator/environment.yaml

Size: 735 MB - Last synced: 19 days ago - Pushed: 20 days ago

luisacusick/VC-Optimus
Bioinformatics pipeline to take short reads, align them to a reference, and call SNPs.
  • 3.8 environment.yml

Size: 138 KB - Last synced: about 1 year ago - Pushed: about 3 years ago

cibinsb/snakemake-wrappers Fork of snakemake/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
  • 3.8 bio/gatk3/baserecalibrator/environment.yaml
  • 3.8 bio/gatk3/indelrealigner/environment.yaml
  • 3.8 bio/gatk3/printreads/environment.yaml
  • 3.8 bio/gatk3/realignertargetcreator/environment.yaml

Size: 217 MB - Last synced: 4 days ago - Pushed: 5 days ago

snakemake/snakemake-wrappers
This repository contains wrapper scripts for fast integration of command line tools.
  • 3.8 bio/gatk3/baserecalibrator/environment.yaml
  • 3.8 bio/gatk3/indelrealigner/environment.yaml
  • 3.8 bio/gatk3/printreads/environment.yaml
  • 3.8 bio/gatk3/realignertargetcreator/environment.yaml

Size: 13 MB - Last synced: over 1 year ago

biominer-lab/omics-workflow-images
Docker images for omics workflow.
  • 3.8 dnaseq-gatk-snv-workflow/environment.yml

Size: 33.8 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

gwcbi/haphpipe
NGS viral assembly and population genetics
  • 3.8 environment.yml

Size: 2.35 MB - Last synced: 7 months ago - Pushed: about 3 years ago

massiddaMT/coverest
Snakemake pipeline for coverage estimation
  • 3.7.* environment.yaml

Size: 792 KB - Last synced: over 1 year ago

mfreitas/docker_rnaseq_star
  • 3.8 rna_seq_gatk/environment.yml

Last synced: over 1 year ago

acc-bioinfo/ACC-environment
Conda environment and docker recipe that contains all software and libraries used for the ACC projects.
  • 3.8 environment.yml

Last synced: over 1 year ago

pd321/snakemake-wrappers Fork of snakemake/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
  • 3.8.* bio/gatk3/baserecalibrator/environment.yaml
  • 3.8.* bio/gatk3/indelrealigner/environment.yaml
  • 3.8.* bio/gatk3/printreads/environment.yaml
  • 3.8.* bio/gatk3/realignertargetcreator/environment.yaml

Size: 228 MB - Last synced: 7 months ago - Pushed: 11 months ago

Phlya/snakemake-wrappers Fork of snakemake/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
  • 3.8.* bio/gatk3/baserecalibrator/environment.yaml
  • 3.8.* bio/gatk3/indelrealigner/environment.yaml
  • 3.8.* bio/gatk3/printreads/environment.yaml
  • 3.8.* bio/gatk3/realignertargetcreator/environment.yaml

Size: 229 MB - Last synced: 10 months ago - Pushed: 10 months ago

davismcc/fibroblast-clonality
Website for the fibroblast clonality project conducted at EMBL-EBI and the Wellcome Sanger Institute ca 2017-2019.
  • 3.8.* environment.yml

Size: 94.8 MB - Last synced: about 1 year ago - Pushed: over 4 years ago

percyfal/snakemake-rules
Library of snakemake rules.
  • environment.yaml

Size: 3.85 MB - Last synced: about 1 year ago - Pushed: over 5 years ago

kramundson/fastq_2_vcf
  • 3.8.* environment.yaml

Size: 3.48 MB - Last synced: 10 months ago - Pushed: almost 5 years ago

kramundson/LOP_manuscript
  • 3.8.* environment.yaml

Size: 40 MB - Last synced: 10 months ago - Pushed: over 4 years ago

IanSudbery/alvarez_et_al
Code and other scripts for Alvarez-Beneyas et al 2020
  • 3.8 environment.yml

Size: 41.2 MB - Last synced: 10 months ago - Pushed: over 2 years ago

greenelab/pdx_exomeseq
Pipeline analysis for whole exome sequencing of pancreatic cancer PDX models
  • 3.8.* environment.yml

Size: 133 MB - Last synced: 7 months ago - Pushed: over 5 years ago

Oodnadatta/Hugodims-pipeline-2
  • 3.7 environment.yml

Size: 3.91 KB - Last synced: 25 days ago - Pushed: over 7 years ago

luozhy88/atlas
  • 3.8.* snakemake-wrappers/raw/v1.19.1/bio/gatk3/baserecalibrator/environment.yaml
  • 3.8.* snakemake-wrappers/raw/v1.19.1/bio/gatk3/indelrealigner/environment.yaml
  • 3.8.* snakemake-wrappers/raw/v1.19.1/bio/gatk3/printreads/environment.yaml
  • 3.8.* snakemake-wrappers/raw/v1.19.1/bio/gatk3/realignertargetcreator/environment.yaml

Size: 213 MB - Last synced: 12 months ago - Pushed: 12 months ago

gongyh/containers
Series of containers
  • 3.8.* scgs/environment.yml

Size: 5.28 MB - Last synced: about 1 month ago - Pushed: 11 months ago

ikit/Bioinfo
Pipelines et tests bioinformatiques
  • 3.7 pipe_snp_indel/environment.yml

Size: 480 KB - Last synced: about 1 month ago - Pushed: almost 7 years ago

LabBandSB/wgs_pipeline_on_hg19
single sample whole human genome alignment/annotation pipeline
  • environment.yml

Size: 90.8 KB - Last synced: about 1 month ago - Pushed: 4 months ago

LabBandSB/wgs_pipeline_on_hg38
  • environment.yml

Size: 18.6 KB - Last synced: about 1 month ago - Pushed: over 3 years ago

casperch/snakemake-wrappers
snakemake-wrappers
  • 3.8 bio/gatk3/baserecalibrator/environment.yaml
  • 3.8 bio/gatk3/indelrealigner/environment.yaml
  • 3.8 bio/gatk3/printreads/environment.yaml
  • 3.8 bio/gatk3/realignertargetcreator/environment.yaml

Size: 119 MB - Last synced: about 1 month ago - Pushed: almost 4 years ago

pdimens/snakemake-wrappers Fork of snakemake/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
  • 3.8.* bio/gatk3/baserecalibrator/environment.yaml
  • 3.8.* bio/gatk3/indelrealigner/environment.yaml
  • 3.8.* bio/gatk3/printreads/environment.yaml
  • 3.8.* bio/gatk3/realignertargetcreator/environment.yaml

Size: 229 MB - Last synced: 7 months ago - Pushed: 7 months ago

bihealth/snappy-pipeline
SNAPPY Nucleic Acid Processing in Python
  • 3.* snappy_wrappers/wrappers/gatk3_hc/environment.yaml
  • 3.* snappy_wrappers/wrappers/gatk3_ug/environment.yaml

Size: 7.57 MB - Last synced: about 1 month ago - Pushed: about 1 month ago

stajichlab/PopGenomics_template
Template for Population Genomics variant calling
  • environment.yml

Size: 131 KB - Last synced: 4 months ago - Pushed: 4 months ago

ericcombiolab/LRTK
A unified and versatile toolkit for analyzing Linked-Read sequencing data
  • 3.6.* environment.yaml

Size: 248 MB - Last synced: about 2 months ago - Pushed: about 2 months ago

nf-core/modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
  • 3.5.* modules/nf-core/gatk/indelrealigner/environment.yml
  • 3.5.* modules/nf-core/gatk/realignertargetcreator/environment.yml
  • 3.5.* modules/nf-core/gatk/unifiedgenotyper/environment.yml

Size: 146 MB - Last synced: about 1 month ago - Pushed: about 1 month ago