Ecosyste.ms: Repos

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

Package Usage: conda: bamtools

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

Dependent Repos 53

oeg-upm/TPDL2022_FAIROs
  • 2.5.1.* experiment1/research_object/environment.yml

Size: 85.9 KB - Last synced: 10 months ago - Pushed: about 2 years ago

cokelaer/rnaseq Fork of sequana/rnaseq
RNA-seq, QC and differential analysis pipeline
  • environment.yml

Size: 3.03 MB - Last synced: 3 months ago - Pushed: 3 months ago

afuentri/B-MyRepCLL
pipeline for a consensus-oriented analysis of B-cell clones
  • 2.4.1 environment.yml

Size: 291 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

tdayris/snakemake-wrappers Fork of snakemake/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
  • 2.5.2.* bio/bamtools/filter/environment.yaml
  • 2.5.2.* bio/bamtools/filter_json/environment.yaml
  • 2.5.2.* bio/bamtools/split/environment.yaml
  • 2.5.2.* bio/bamtools/stats/environment.yaml
  • 2.5.1.* bio/ngs-disambiguate/environment.yaml

Size: 735 MB - Last synced: 28 days ago - Pushed: 29 days ago

BioinfoNet/TeachingJupyterNotebooks
Training materials for the Open Science Workshop held in Nariobi
  • 2.5.1 environment.yml

Size: 16 MB - Last synced: over 1 year ago - Pushed: over 5 years ago

cibinsb/snakemake-wrappers Fork of snakemake/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
  • 2.5.1 bio/bamtools/filter/environment.yaml
  • 2.5.1 bio/bamtools/filter_json/environment.yaml
  • 2.5.1 bio/bamtools/split/environment.yaml
  • 2.5.1 bio/bamtools/stats/environment.yaml

Size: 217 MB - Last synced: 14 days ago - Pushed: 14 days ago

sheynkman-lab/Long-Read-Proteogenomics
A workflow for enhanced protein isoform detection through integration of long-read RNA-seq and mass spectrometry-based proteomics.
  • containers/isoseq3/environment.yml

Size: 108 MB - Last synced: 8 months ago - Pushed: over 1 year ago

sgavril/Nugen-Pilot-Analysis
  • 2.5.1.* environment.yml

Size: 68.8 MB - Last synced: 10 months ago - Pushed: over 1 year ago

snakemake/snakemake-wrappers
This repository contains wrapper scripts for fast integration of command line tools.
  • 2.4.0 bio/ngs-disambiguate/environment.yaml

Size: 13 MB - Last synced: almost 2 years ago

ComparativeGenomicsToolkit/Comparative-Annotation-Toolkit
  • 2.5.1.* environment.yaml

Size: 15.3 MB - Last synced: 2 months ago - Pushed: 2 months ago

biominer-lab/omics-workflow-images
Docker images for omics workflow.
  • 2.4.1 consensus-call-anotate/environment.yml

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

FischbachLab/nf-ninjaindex
Nextflow pipeline to build the ninja index for ninjaMap
  • 2.5.1.* environment.yml

Size: 60.5 KB - Last synced: 7 months ago - Pushed: 7 months ago

scilifelab-lts/lts-workflows-sm-scrnaseq
  • 2.4.0.* lts_workflows_sm_scrnaseq/environment.yaml

Size: 2.28 MB - Last synced: over 1 year ago

sequana/sequana-wrappers
The Sequana Wrapper Repository is a collection of reusable wrappers used in Sequana Pipelines.
  • wrappers/add_read_group/environment.yaml
  • wrappers/bamtools/index/environment.yaml
  • wrappers/bamtools/sort/environment.yaml
  • wrappers/bowtie1/align/environment.yaml
  • wrappers/snpeff_add_locus_in_fasta/environment.yaml

Size: 15.6 MB - Last synced: 18 days ago - Pushed: 4 months ago

FischbachLab/ninjaMap
Compute strain abundance in a defined microbial community
  • 2.5.1.* nf-core-ninjaindex/environment.yml

Size: 147 KB - Last synced: 10 months ago - Pushed: 10 months ago

sheynkman-lab/IsoSeq-Nextflow
Nextflow implementation of IsoSeq3
  • containers/isoseq/environment.yml

Size: 50.8 KB - Last synced: about 1 year ago - Pushed: about 2 years ago

cokelaer/bioconvert Fork of bioconvert/bioconvert
Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.
  • environment.yml

Size: 19.9 MB - Last synced: 3 months ago - Pushed: 11 months ago

isugifNF/polishCLR
A nextflow pipeline for polishing CLR assemblies
  • environment.yml

Size: 6.06 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

scilifelab-lts/lts-workflows-sm-metagenomics
  • lts_workflows_sm_metagenomics/envs/environment.yaml

Size: 428 MB - Last synced: over 1 year ago

clinical-genomics-uppsala/Twist_DNA
  • 2.5.1.* dockerfiles/rare_diseases/environment.yml
  • 2.5.1.* dockerfiles/somatic/environment.yml

Size: 18.5 MB - Last synced: about 1 year ago - Pushed: over 2 years ago

michaelbale/JLab-IPSeqFlow
J-Lab nextflow repo hub
  • environment.yml

Size: 103 KB - Last synced: about 1 year ago - Pushed: about 1 year ago

apetkau/genomics-data-index-evaluation-manuscript
  • evaluations/simulation/environment.yml

Size: 37.9 MB - Last synced: 10 months ago - Pushed: over 1 year ago

cokelaer/sequana-wrappers Fork of sequana/sequana-wrappers
The Sequana Wrapper Repository is a collection of reusable wrappers used in Sequana Pipelines.
  • wrappers/add_read_group/environment.yaml
  • wrappers/bamtools/index/environment.yaml
  • wrappers/bamtools/sort/environment.yaml
  • wrappers/bowtie1/align/environment.yaml

Size: 15.6 MB - Last synced: 3 months ago - Pushed: 4 months ago

pd321/snakemake-wrappers Fork of snakemake/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
  • 2.5.2.* bio/bamtools/filter/environment.yaml
  • 2.5.2.* bio/bamtools/filter_json/environment.yaml
  • 2.5.2.* bio/bamtools/split/environment.yaml
  • 2.5.2.* bio/bamtools/stats/environment.yaml

Size: 228 MB - Last synced: 8 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
  • 2.5.2.* bio/bamtools/filter/environment.yaml
  • 2.5.2.* bio/bamtools/filter_json/environment.yaml
  • 2.5.2.* bio/bamtools/split/environment.yaml
  • 2.5.2.* bio/bamtools/stats/environment.yaml

Size: 229 MB - Last synced: 10 months ago - Pushed: 11 months ago

ddesvillechabrol/sequana-wrappers Fork of sequana/sequana-wrappers
The Sequana Wrapper Repository is a collection of reusable wrappers used in Sequana Pipelines.
  • wrappers/add_read_group/environment.yaml
  • wrappers/bamtools/index/environment.yaml
  • wrappers/bamtools/sort/environment.yaml
  • wrappers/bowtie1/align/environment.yaml

Size: 12.8 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

cokelaer/sequana_bioconvert Fork of sequana/bioconvert
convert files from one format to another using bioconvert
  • environment.yml

Size: 627 KB - Last synced: 3 months ago - Pushed: 6 months 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

duncanberger/nxf-BATQual
Bacterial genome assembly, annotation and typing pipeline.
  • 2.5.1 environment.yaml

Size: 321 KB - Last synced: 10 months ago - Pushed: 10 months ago

biocompute-objects/bco-ro-example-chipseq
Packaging a IEEE 2791 described BioCompute Object as RO-Crate, using nf-core/chipseq as example
  • 2.5.1.* data/environment.yml

Size: 107 MB - Last synced: about 2 months ago - Pushed: about 3 years ago

lumc-pgx/CCS-Amplicon
Create polished, phased allele sequences from PacBio amplicon data.
  • 2.5.1.* environment.yaml

Size: 111 KB - Last synced: over 1 year ago - Pushed: almost 5 years ago

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

Size: 133 MB - Last synced: 8 months ago - Pushed: over 5 years ago

jfear/ncbi_remap
This is the drosSRA project, where we are remapping all Drosophila melanogaster RNA-seq data to FlyBase release 6 and updating annotations.
  • 2.5.1.* singularity/environment.yaml

Size: 36.6 MB - Last synced: about 1 month ago - Pushed: almost 3 years ago

mtinti/calvin_tfr2
  • environment.yml

Size: 25.1 MB - Last synced: over 1 year ago - Pushed: over 3 years ago

mtinti/calvin_tfr
  • environment.yml

Size: 41.6 MB - Last synced: over 1 year ago - Pushed: over 3 years ago

crickbabs/BABS-ATACSeqPE
This pipeline has been superceeded. Please use >>>
  • 2.5.1.* environment.yaml

Size: 5.05 MB - Last synced: over 1 year ago - Pushed: over 5 years ago

luozhy88/atlas
  • 2.5.2.* snakemake-wrappers/raw/v1.19.1/bio/bamtools/filter/environment.yaml
  • 2.5.2.* snakemake-wrappers/raw/v1.19.1/bio/bamtools/filter_json/environment.yaml
  • 2.5.2.* snakemake-wrappers/raw/v1.19.1/bio/bamtools/split/environment.yaml
  • 2.5.2.* snakemake-wrappers/raw/v1.19.1/bio/bamtools/stats/environment.yaml

Size: 213 MB - Last synced: almost 1 year ago - Pushed: almost 1 year ago

AbeelLab/long-read-assembly-benchmark
  • 2.5.1 environment.yml

Size: 7.68 MB - Last synced: about 2 months ago - Pushed: over 1 year ago

tarunkhajuria42/atac-bioinfomatics
  • 2.5.1.* environment.yml

Size: 1.04 MB - Last synced: 2 months ago - Pushed: about 5 years ago

lengfei5/nf_visium_kallisto
  • 2.5.1.* environment.yml

Size: 2.12 MB - Last synced: over 1 year ago - Pushed: almost 2 years ago

michaelbale/JLab-ATACFlow
JLab Nextflow ATACSeq Pipeline
  • environment.yml

Size: 25.6 MB - Last synced: about 1 year ago - Pushed: about 2 years ago

apetkau/genomics-data-index-evaluation
  • evaluations/simulation/environment.yml

Size: 39.7 MB - Last synced: 10 months ago - Pushed: almost 2 years ago

lengfei5/nf_atacseq
  • 2.5.1.* environment.yml

Size: 1.29 MB - Last synced: over 1 year ago - Pushed: over 1 year ago

crickbabs/BABS-MNASeqPE 📦
This pipeline has been superceeded. Please use >>>
  • 2.5.1.* environment.yaml

Size: 1.38 MB - Last synced: over 1 year ago - Pushed: over 5 years ago

seb-mueller/snakemake_sRNAseq
Snakemake workflow for processing small RNA-seq libaries
  • environment.yaml

Size: 53.7 KB - Last synced: about 1 year ago - Pushed: about 3 years ago

seb-mueller/snakemake-bisulfite
Pipeline for BS-Seq data based on snakemake
  • environment.yaml

Size: 1.06 MB - Last synced: about 1 year ago - Pushed: about 2 years ago

casperch/snakemake-wrappers
snakemake-wrappers
  • 2.4.0 bio/ngs-disambiguate/environment.yaml

Size: 119 MB - Last synced: about 2 months ago - Pushed: almost 4 years ago

shenlab-sinai/NGS-Data-Charmer
This repository hosts an automated NGS data analysis (RNA-seq and ChIP-seq) pipeline created using Snakemake.
  • environment.yaml

Size: 1.18 MB - Last synced: 2 months ago - Pushed: 4 months ago

GenomicsNX/NGI-ChIPseq Fork of nf-core/chipseq
Nextflow ChIP-seq data analysis pipeline, National Genomics Infrastructure, Science for Life Laboratory in Stockholm
  • 2.5.1.* environment.yml

Size: 11.3 MB - Last synced: about 2 months ago - Pushed: almost 3 years ago

GenomicsNX/atacseq-1 Fork of nf-core/atacseq
ATAC-seq peak-calling, QC and differential analysis pipeline
  • 2.5.1.* environment.yml

Size: 3.95 MB - Last synced: about 2 months ago - Pushed: over 4 years ago

BitaoQiu/Comparative-Annotation-Toolkit Fork of ComparativeGenomicsToolkit/Comparative-Annotation-Toolkit
  • 2.5.1.* environment.yaml

Size: 15.3 MB - Last synced: 11 months ago - Pushed: over 3 years ago

BharatPanera/chipseq Fork of nf-core/chipseq
ChIP-seq peak-calling, QC and differential analysis pipeline.
  • 2.5.1.* environment.yml

Size: 14.4 MB - Last synced: 11 months ago - Pushed: almost 2 years ago

philge/Comparative-Annotation-Toolkit Fork of ComparativeGenomicsToolkit/Comparative-Annotation-Toolkit
  • 2.5.1.* environment.yaml

Size: 15.2 MB - Last synced: 11 months ago - Pushed: almost 3 years ago

fgvieira/snakemake-wrappers Fork of snakemake/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
  • 2.5.2.* bio/bamtools/filter/environment.yaml
  • 2.5.2.* bio/bamtools/filter_json/environment.yaml
  • 2.5.2.* bio/bamtools/split/environment.yaml
  • 2.5.2.* bio/bamtools/stats/environment.yaml

Size: 291 MB - Last synced: 5 minutes ago - Pushed: about 22 hours ago

pdimens/snakemake-wrappers Fork of snakemake/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
  • 2.5.2.* bio/bamtools/filter/environment.yaml
  • 2.5.2.* bio/bamtools/filter_json/environment.yaml
  • 2.5.2.* bio/bamtools/split/environment.yaml
  • 2.5.2.* bio/bamtools/stats/environment.yaml

Size: 229 MB - Last synced: 8 months ago - Pushed: 8 months ago

sequana/mapper
Pipeline to map a set of FastQ files
  • environment.yml

Size: 820 KB - Last synced: 22 days ago - Pushed: 4 months ago

Kirk3gaard/2023-basecalling-benchmarks
  • 2.5.2.* environment.yml

Size: 19.6 MB - Last synced: 6 months ago - Pushed: 6 months ago

bioconvert/bioconvert
Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.
  • environment.yml

Size: 19.9 MB - Last synced: 17 days ago - Pushed: 6 months ago

sequana/rnaseq
RNA-seq, QC and differential analysis pipeline
  • environment.yml

Size: 3.03 MB - Last synced: 22 days ago - Pushed: 3 months ago

biomonika/HPP
  • 2.5.1.* environment.yml
  • 2.5.1.* palindromes/environment.yml

Size: 478 KB - Last synced: 6 days ago - Pushed: 6 days ago

sequana/variant_calling
  • environment.yml

Size: 488 KB - Last synced: 22 days ago - Pushed: 4 months ago

nf-core/modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
  • 2.5.2.* modules/nf-core/bamtools/convert/environment.yml
  • 2.5.2.* modules/nf-core/bamtools/split/environment.yml
  • 2.5.2.* modules/nf-core/bamtools/stats/environment.yml

Size: 146 MB - Last synced: about 2 months ago - Pushed: about 2 months ago

jeppebayer/genome_assembly_and_annotation
  • 2.5.2.* scripts/old_HiC/workflow_source/environment.yml

Size: 35 MB - Last synced: 28 days ago - Pushed: 28 days ago

nf-core/scnanoseq
Single-cell/nuclei pipeline for data derived from Oxford Nanopore
  • 2.5.2.* modules/nf-core/bamtools/split/environment.yml

Size: 21 MB - Last synced: 19 days ago - Pushed: 19 days ago