Ecosyste.ms: Packages

An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.

spack.io "genomics" keyword

smof 2.13.1
Explore and analyze biological sequence data
1 version - Latest release: about 2 years ago - 12 stars on GitHub
psmc 2016-1-21
mplementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model
1 version - Latest release: about 2 years ago - 125 stars on GitHub
Top 9.6% on spack.io
py-galaxy-job-metrics 22.1.1
The Galaxy job metrics framework and default plugins.
1 version - Latest release: over 1 year ago - 1 dependent package - 1,077 stars on GitHub - 1 maintainer
Top 9.6% on spack.io
py-galaxy-objectstore 22.1.1
The Galaxy object store framework and default implementations.
1 version - Latest release: over 1 year ago - 1 dependent package - 1,077 stars on GitHub - 1 maintainer
Top 9.6% on spack.io
py-galaxy-containers 22.1.1
The Galaxy containers module - interfaces for modeling and interacting with container backends (d...
1 version - Latest release: over 1 year ago - 1 dependent package - 1,077 stars on GitHub - 1 maintainer
Top 5.1% on spack.io
py-galaxy-util 22.1.2
Galaxy Generic Utilities
1 version - Latest release: over 1 year ago - 5 dependent packages - 1,077 stars on GitHub - 1 maintainer
Top 7.4% on spack.io
py-galaxy-tool-util 22.1.5
The Galaxy tool utilities.
1 version - Latest release: over 1 year ago - 2 dependent packages - 1,077 stars on GitHub - 1 maintainer
dorado
Dorado is a high-performance, easy-to-use, open source basecaller for Oxford Nanopore reads.
Latest release: 4 days ago - 284 stars on GitHub - 1 maintainer
roary 3.13.0
Rapid large-scale prokaryote pan genome analysis
1 version - Latest release: over 1 year ago - 254 stars on GitHub
py-cyvcf2 0.11.7 💰
fast vcf parsing with cython + htslib
1 version - Latest release: about 2 years ago - 2 dependent packages - 321 stars on GitHub - 1 maintainer
py-goatools 0.7.11
Python scripts to find enrichment of GO terms
1 version - Latest release: about 2 years ago - 580 stars on GitHub - 1 maintainer
py-ncbi-genome-download 0.3.1
Scripts to download genomes from the NCBI FTP servers
1 version - Latest release: over 1 year ago - 730 stars on GitHub - 1 maintainer
fermikit 2017-11-7
De novo assembly based variant calling pipeline for Illumina short reads
1 version - Latest release: about 2 years ago - 105 stars on GitHub
fermi 1.1
A WGS de novo assembler based on the FMD-index for large genomes.
1 version - Latest release: about 2 years ago - 74 stars on GitHub
fq 0.10.0
fq is a library to generate and validate FASTQ file pairs. fq provides subcommands for filtering,...
1 version - Latest release: 8 months ago - 50 stars on GitHub - 1 maintainer
py-ipyrad 0.9.93
An interactive toolkit for assembly and analysis of restriction-site associated genomic data sets...
5 versions - Latest release: about 2 months ago - 63 stars on GitHub - 1 maintainer
Top 9.8% on spack.io
minimap2 2.17
Minimap2 is a versatile sequence alignment program that aligns DNA or mRNA sequences against a la...
6 versions - Latest release: 4 months ago - 1 dependent package - 1,391 stars on GitHub - 1 maintainer
py-pyfastaq 3.17.0
Manipulate FASTA and FASTQ files.
7 versions - Latest release: 3 months ago - 64 stars on GitHub - 1 maintainer
megahit 1.1.4
MEGAHIT: An ultra-fast single-node solution for large and complex metagenomics assembly via succi...
2 versions - Latest release: about 2 years ago - 448 stars on GitHub
py-phanotate 1.5.0
PHANOTATE is a tool to annotate phage genomes. It uses the assumption that non-coding bases in a ...
1 version - Latest release: over 1 year ago - 1 dependent package - 51 stars on GitHub - 1 maintainer
Top 3.7% on spack.io
bwa 0.7.17
Burrow-Wheeler Aligner for pairwise alignment between DNA sequences.
4 versions - Latest release: about 2 years ago - 14 dependent packages - 1,260 stars on GitHub
wgsim 2011.10.17
Wgsim is a small tool for simulating sequence reads from a reference genome. It is able to simula...
1 version - Latest release: about 2 years ago - 228 stars on GitHub
redundans 0.13c
Redundans pipeline assists an assembly of heterozygous genomes.
2 versions - Latest release: about 2 years ago - 99 stars on GitHub
Related Keywords
bioinformatics 19 sequencing 7 pipeline 6 workflow-engine 5 workflow 5 usegalaxy 5 science 5 ngs 5 hacktoberfest 5 dna 5 next-generation-sequencing 3 genome-assembly 2 sequence-alignment 2 assembly 2 python 2 denovo-assembly 2 research 2 pathogen 2 infectious-diseases 2 global-health 2 biology 2 fasta 2 sequence 1 illumina 1 rust 1 scaffolding 1 phylogeny 1 rad-seq 1 polymorphic 1 spliced-alignment 1 data-structures 1 paired-end 1 metagenomics 1 succinct 1 annotate-phage-genomes 1 annotation 1 phage 1 fm-index 1 assembled-contigs 1 closing 1 contigs 1 mate-pairs 1 heterozygous 1 gap 1 docker-image 1 sequence-analysis 1 population-genetics 1 basecalling 1 libtorch 1 nanopore 1 bioinformatics-pipeline 1 cython 1 htslib 1 vcf 1 bioinfomatics 1 fdr 1 fdr-benjamini 1 fisher-tests 1 gene-ontology 1 gene-set-enrichment 1 goslim-terms 1 holm-sidak 1 sidak 1 command-line 1 download-genomes 1 genbank 1 ncbi 1 variant-calling 1 fastq 1 fastq-files 1