Ecosyste.ms: Repos

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

Package Usage: conda: bbmap

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

Dependent Repos 34

brucemoran/tumour_only
Tumour-only DNA sequencing analysis
  • 38.90 environment.yaml

Size: 58.6 KB - Last synced: about 1 year ago - Pushed: over 1 year ago

stajichlab/AAFTF
Automatic Assembly For The Fungi
  • environment.yml

Size: 2.37 MB - Last synced: 3 months ago - Pushed: 10 months ago

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

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

casrssk/WGS-analysis-in-C_trachomatis
  • 38.79 mac/samples/envs/environment.yml

Size: 7.39 MB - Last synced: 5 months ago - Pushed: about 2 years ago

cidgoh/nf-ncov-voc
A Nextflow wrapped workflow for generating the mutation profiles of SARS-CoV-2 genomes (Variants of Concern and Variants of Interest). Workflow is developed in collaboration with COVID-MVP (https://github.com/cidgoh/COVID-MVP) which can be used to visualize the mutation profiles and functional annotations.
  • 38.90.* environments/environment.yml

Size: 15.3 MB - Last synced: 18 days ago - Pushed: 18 days ago

tdayris/snakemake-wrappers Fork of snakemake/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
  • 39.01.* bio/bbtools/bbduk/environment.yaml

Size: 735 MB - Last synced: about 1 month ago - Pushed: about 1 month ago

hivlab/virome-wrappers
snakemake wrappers
  • 38.22.* assembly/coverage/environment.yaml
  • 38.* bbtools/bbduk/environment.yaml
  • 38.* bbtools/bbmerge/environment.yaml
  • 38.* bbtools/bbnorm/environment.yaml
  • 38.* bbtools/bbwrap/environment.yaml
  • 38.* bbtools/callvariants/environment.yaml
  • 38.* bbtools/clumpify/environment.yaml
  • 38.* bbtools/filterbytile/environment.yaml
  • 38.* bbtools/pileup/environment.yaml
  • 38.* bbtools/reformat/environment.yaml
  • 38.* bbtools/repair/environment.yaml
  • 38.22.* bbtools/shred/environment.yaml
  • 38.* bbtools/tadpole/environment.yaml
  • 38.49.* preprocess/environment.yaml
  • 38.49.* unmapped/environment.yaml

Size: 30.5 MB - Last synced: over 1 year ago - Pushed: about 2 years ago

brucemoran/RNAseq_kallisto
RNAseq with Kallisto
  • 38.57.* environment.yaml

Size: 52.7 KB - Last synced: about 1 year ago - Pushed: almost 3 years ago

fshepherd13/dirty-mouse-virome
Code and documentation for Fay et al., 2021
  • environment.yaml

Size: 1.37 MB - Last synced: about 1 year ago - Pushed: about 3 years ago

JamesZlosnik/bbmap-nf
  • 38.96.* environments/environment.yml

Size: 8.79 KB - Last synced: 5 months ago - Pushed: almost 2 years ago

jjacobson95/Genomics-In-Action-Resources
  • 38.16.* Metagenomics_Snakemake_Pipeline/environment.yaml
  • 38.16.* Metatranscriptomics_Snakemake_Pipeline/environment.yaml

Size: 1.79 MB - Last synced: 6 months ago - Pushed: over 2 years ago

BCCDC-PHL/mpxv-artic-nf
  • 38.97.* environments/environment.yml

Size: 49.2 MB - Last synced: about 2 months ago - Pushed: 12 months ago

hallamlab/SABer
SAG Anchored Binner
  • 38.18.* environment.yml

Size: 13 MB - Last synced: about 1 month ago - Pushed: 8 months ago

cibinsb/snakemake-wrappers Fork of snakemake/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
  • 38.90 bio/bbtools/bbduk/environment.yaml

Size: 217 MB - Last synced: 17 days ago - Pushed: 17 days ago

davidlevybooth/Rhodococcus_Transcriptomics
Rhodococcus Transcriptomic Pipeline
  • 38.22.* environment.yaml

Size: 21.5 KB - Last synced: over 1 year ago - Pushed: about 5 years ago

davidlevybooth/meiji
  • 38.76.* environment.yml

Size: 1.15 MB - Last synced: over 1 year ago - Pushed: almost 4 years ago

mitoNGS/MToolBox_snakemake
MToolBox pipeline written in snakemake to allow a better scalability
  • 38.22.* envs/environment.yaml

Size: 2.17 MB - Last synced: over 1 year ago - Pushed: about 2 years ago

ajodeh-juma/viclara
viclara is a bioinformatics analysis pipeline for classification and reference guided assembly of segmented viruses from metagenomics reads obtained on Illumina platform.
  • 38.87.* environment.yml

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

hoganlab-dartmouth/pa-seq-compendia
To build compendia of publicly available RNAseq data for P. aeruginosa, specifically.
  • 38.96.* auto_add_to_compendia/environment.yml

Size: 19.3 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago

jjacobson95/Metagenomics_Snakemake_Pipeline
Metagenomics pipeline to find Relative Species Abundance
  • 38.16.* environment.yaml

Size: 94.7 KB - Last synced: 6 months ago - Pushed: over 2 years ago

brucemoran/somatic_n-of-1
Somatic-Germline n-of-1 DNAseq Analysis
  • environment.yaml

Size: 317 KB - Last synced: about 1 year ago - Pushed: over 1 year ago

Pinjontall94/abed
  • 38.87 environment.yaml

Last synced: over 1 year ago

Pinjontall94/asd_test
  • >=38.82 environment.yaml

Last synced: over 1 year ago

spirit678/lncrna_conservation_nf
  • 38.73.* environment.yml

Last synced: over 1 year ago

milothepsychic/rnaseq_pipeline
Snakemake RNAseq processing pipeline (STAR or Salmon) via a SLURM cluster
  • 38.56 environment.yml

Last synced: over 1 year ago

nf-core/vipr 📦
Assembly and intrahost / low-frequency variant calling for viral samples
  • 37.17.* environment.yml

Size: 217 KB - Last synced: 4 months ago - Pushed: over 4 years ago

eudesbarbosa/snappy-pipeline Fork of bihealth/snappy-pipeline
SNAPPY Nucleic Acid Processing in Python
  • 39.* snappy_wrappers/wrappers/bbduk/environment.yaml
  • 39.* snappy_wrappers/wrappers/bbduk/run/environment.yaml

Size: 2.16 MB - Last synced: over 1 year ago - Pushed: over 1 year ago

pd321/snakemake-wrappers Fork of snakemake/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
  • 39.01.* bio/bbtools/bbduk/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
  • 39.01.* bio/bbtools/bbduk/environment.yaml

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

healthyPlant/PhytoPipe
  • environment.yaml

Size: 114 MB - Last synced: 5 months ago - Pushed: 5 months ago

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

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

alexhbnr/snakemake-wrappers
Modules of common programs and scripts for Snakemake
  • 39.01.* bio/bbtools/bbnorm/environment.yaml
  • 39.01.* bio/bbtools/loglog/environment.yaml

Size: 36.1 KB - Last synced: over 1 year ago - Pushed: over 1 year ago

kviljoen/fastq_QC
fastQC and bbduk adapter removal, trimming filtering
  • environment.yml

Size: 518 KB - Last synced: 8 months ago - Pushed: about 3 years ago

neavemj/mappd
Metagenomic Analysis Pipeline for Pathogen Discovery
  • 38.58 environment.yaml

Size: 924 KB - Last synced: 9 months ago - Pushed: 9 months ago

USDA-ARS-GBRU/keio
  • 38.22 environment.yml

Size: 1.91 MB - Last synced: over 1 year ago - Pushed: over 3 years ago

davidlevybooth/Praxis
  • 38.22.* envs/environment.yaml

Size: 137 KB - Last synced: over 1 year ago - Pushed: over 3 years ago

unique379r/RNAseq2func
A comprehensive RNA analysis from sequence to function and pathway reporting
  • setup/environment.yml

Size: 308 KB - Last synced: about 2 months ago - Pushed: over 1 year ago

brwnj/hundo
Amplicon processing protocols
  • environment.yml

Size: 346 MB - Last synced: about 1 year ago - Pushed: about 7 years ago

rpetit3/illumina-cleanup 📦
A simple pipeline for pre-processing Illumina FASTQ files.
  • 38.22 environment.yml

Size: 4.07 MB - Last synced: 3 months ago - Pushed: 3 months ago

luozhy88/atlas
  • 39.01.* snakemake-wrappers/raw/v1.19.1/bio/bbtools/bbduk/environment.yaml
  • 39.01.* snakemake-wrappers/raw/v1.19.1/bio/bbtools/loglog/environment.yaml
  • 39.01.* snakemake-wrappers/raw/v1.19.1/bio/bbtools/tadpole/environment.yaml

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

connor-lab/qc_nextflow
A nextflow pipeline for inital QC of Illumina sequencing data
  • 38.70.* environment.yml

Size: 52.7 KB - Last synced: over 1 year ago - Pushed: over 4 years ago

jhgille2/cs590_2023
Random files for CS590 Spring 2023
  • 38.93 e9/environment.yml

Size: 39.7 MB - Last synced: about 1 year ago - Pushed: about 1 year ago

kathiehuang/haplotype_calling_pipeline
  • 39.01.* config/environment.yaml

Size: 2.65 GB - Last synced: about 1 year ago - Pushed: about 1 year ago

bhagesh-codebeast/nextflowdualrnaseq
  • 38.87.* environment.yml

Size: 35.7 MB - Last synced: over 1 year ago - Pushed: about 3 years ago

AstrobioMike/Elinne-RNA-binder
  • environment.yml

Size: 8.79 KB - Last synced: over 1 year ago - Pushed: about 4 years ago

casperch/snakemake-wrappers
snakemake-wrappers
  • 38.86 bio/bbmap/bbsplit/environment.yaml
  • 38.86 bio/bbmap/tadpole/environment.yaml

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

hatio/dockerAF
code to build docker containers
  • 01-buildContainer/afscov2-css/environment.yml

Size: 202 KB - Last synced: 12 months ago - Pushed: almost 3 years ago

nyirock/medimag
  • 38.87 environment.yml

Size: 57.6 KB - Last synced: over 1 year ago - Pushed: over 1 year ago

alexmsalmeida/amr-profiler
Snakemake workflow to characterize the presence and abundance of antibiotic resistance genes in metagenomic datasets.
  • config/environment.yml

Size: 27.3 KB - Last synced: about 1 year ago - Pushed: over 2 years ago

Vikash84/viclara
  • 38.67.* environment.yaml

Size: 289 KB - Last synced: over 1 year ago - Pushed: almost 4 years ago

TRON-Bioinformatics/easyfuse-src
EasyFuse source code to build python package
  • 39.00 environment.yml

Size: 105 MB - Last synced: 10 months ago - Pushed: 10 months ago

aditi48n/SABer Fork of hallamlab/SABer
SAG Anchored Binner
  • 38.18.* environment.yml

Size: 13 MB - Last synced: 9 months ago - Pushed: about 1 year ago

fgvieira/snakemake-wrappers Fork of snakemake/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
  • 39.01.* bio/bbtools/bbduk/environment.yaml
  • 39.01.* bio/bbtools/loglog/environment.yaml
  • 39.01.* bio/bbtools/tadpole/environment.yaml

Size: 291 MB - Last synced: 2 days ago - Pushed: 3 days ago

pdimens/snakemake-wrappers Fork of snakemake/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
  • 39.01.* bio/bbtools/bbduk/environment.yaml
  • 39.01.* bio/bbtools/loglog/environment.yaml
  • 39.01.* bio/bbtools/tadpole/environment.yaml

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

bihealth/snappy-pipeline
SNAPPY Nucleic Acid Processing in Python
  • 39.* snappy_wrappers/wrappers/bbduk/run/environment.yaml

Size: 7.57 MB - Last synced: about 2 months ago - Pushed: about 2 months ago

nf-core/metatdenovo
Assembly and annotation of metatranscriptomic data, both prokaryotic and eukaryotic.
  • 39.01.* modules/nf-core/bbmap/align/environment.yml
  • 39.01.* modules/nf-core/bbmap/bbduk/environment.yml
  • 39.01.* modules/nf-core/bbmap/bbnorm/environment.yml
  • 39.01.* modules/nf-core/bbmap/index/environment.yml

Size: 12.7 MB - Last synced: 6 months ago - Pushed: 6 months ago

nf-core/modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
  • 39.01.* modules/nf-core/bbmap/align/environment.yml
  • 39.01.* modules/nf-core/bbmap/bbduk/environment.yml
  • 39.01.* modules/nf-core/bbmap/bbnorm/environment.yml
  • 39.01.* modules/nf-core/bbmap/bbsplit/environment.yml
  • 39.01.* modules/nf-core/bbmap/clumpify/environment.yml
  • 39.01.* modules/nf-core/bbmap/index/environment.yml
  • 39.01.* modules/nf-core/bbmap/pileup/environment.yml
  • 39.01.* modules/nf-core/bbmap/sendsketch/environment.yml

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

tmbuza/imap-read-quality-control-og
Preprocessing microbiome fastq reads using Seqkit, FastQC, MultiQC, trimmomatic, kneaddata, etc.
  • 39.01.* workflow/envs/environment.yml

Size: 12.1 MB - Last synced: about 1 month ago - Pushed: 4 months ago

eccc-science/aws-genpoc
AWS PoC using Snakemake
  • workflows/exp01/envs/environment.yaml

Size: 69.3 KB - Last synced: 2 days ago - Pushed: 2 days ago