Ecosyste.ms: Packages
An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.
pypi.org "genetics" keyword
greatbrowser 0.0.1
Automate stanford's GREAT browser1 version - Latest release: about 1 hour ago - 2 maintainers
mlg-assign 1.0.3
Application to add MLG2 versions - Latest release: almost 4 years ago - 1 dependent repositories - 27 downloads last month - 0 stars on GitHub - 1 maintainer
Top 8.5% on pypi.org
8 versions - Latest release: 10 days ago - 1 dependent package - 5 dependent repositories - 995 downloads last month - 213 stars on GitHub - 1 maintainer
sgkit 0.8.0
Statistical genetics toolkit8 versions - Latest release: 10 days ago - 1 dependent package - 5 dependent repositories - 995 downloads last month - 213 stars on GitHub - 1 maintainer
Top 2.4% on pypi.org
150 versions - Latest release: about 1 month ago - 6 dependent packages - 43 dependent repositories - 40.5 thousand downloads last month - 925 stars on GitHub - 3 maintainers
hail 0.2.130
Scalable library for exploring and analyzing genomic data.150 versions - Latest release: about 1 month ago - 6 dependent packages - 43 dependent repositories - 40.5 thousand downloads last month - 925 stars on GitHub - 3 maintainers
cbgen 1.0.4
Python wrapper around a BGEN library12 versions - Latest release: about 1 year ago - 2 dependent packages - 4 dependent repositories - 5.05 thousand downloads last month - 1 stars on GitHub - 2 maintainers
Top 2.1% on pypi.org
58 versions - Latest release: 3 months ago - 12 dependent packages - 83 dependent repositories - 5.33 thousand downloads last month - 167 stars on GitHub - 4 maintainers
msprime 1.3.1
Simulate genealogical trees and genomic sequence data using population genetic models58 versions - Latest release: 3 months ago - 12 dependent packages - 83 dependent repositories - 5.33 thousand downloads last month - 167 stars on GitHub - 4 maintainers
limix-plot 0.1.2
Plotting library for genetics.14 versions - Latest release: about 5 years ago - 1 dependent repositories - 107 downloads last month - 1 stars on GitHub - 2 maintainers
Top 8.8% on pypi.org
90 versions - Latest release: over 4 years ago - 6 dependent repositories - 410 downloads last month - 97 stars on GitHub - 2 maintainers
limix 3.0.4
Genetic analysis toolbox using mixed models90 versions - Latest release: over 4 years ago - 6 dependent repositories - 410 downloads last month - 97 stars on GitHub - 2 maintainers
Top 4.8% on pypi.org
56 versions - Latest release: almost 3 years ago - 7 dependent packages - 22 dependent repositories - 5.87 thousand downloads last month - 75 stars on GitHub - 2 maintainers
pandas-plink 2.2.9
Read PLINK files into Pandas data frames56 versions - Latest release: almost 3 years ago - 7 dependent packages - 22 dependent repositories - 5.87 thousand downloads last month - 75 stars on GitHub - 2 maintainers
Top 8.7% on pypi.org
52 versions - Latest release: almost 3 years ago - 2 dependent packages - 5 dependent repositories - 3.16 thousand downloads last month - 10 stars on GitHub - 2 maintainers
bgen-reader 4.0.8
Bgen file format reader52 versions - Latest release: almost 3 years ago - 2 dependent packages - 5 dependent repositories - 3.16 thousand downloads last month - 10 stars on GitHub - 2 maintainers
egrm 0.1
Expected Genetic Relationship Matrix1 version - Latest release: over 2 years ago - 1 dependent repositories - 17 downloads last month - 6 stars on GitHub - 2 maintainers
timesweeper 1.4.1
A tool for detecting positive selective sweeps using time-series genomcis data.7 versions - Latest release: about 1 month ago - 33 downloads last month - 14 stars on GitHub - 1 maintainer
gpubs 6
Pipeline to download and annotate gene-related publications6 versions - Latest release: 9 months ago - 15 downloads last month - 2 maintainers
plinkliftover 0.5.2
Converts genotype data stored in plink's PED+MAP format from one genome build to another, using l...7 versions - Latest release: 8 months ago - 1 dependent repositories - 75 downloads last month - 4 stars on GitHub - 2 maintainers
epigen 0.3.0
A tool for genetic data under epistatic models1 version - Latest release: over 9 years ago - 2 dependent repositories - 9 downloads last month - 1 stars on GitHub - 2 maintainers
pygenomics 0.1.5
A modern genomics library4 versions - Latest release: about 7 years ago - 3 dependent repositories - 24 downloads last month - 17 stars on GitHub - 4 maintainers
bio-aid 0.3.1
Genetic Analysis Tools22 versions - Latest release: 8 months ago - 26 downloads last month - 1 maintainer
funpipe 0.1.0
A pipeline for analyzing fungal genomic data1 version - Latest release: about 5 years ago - 1 dependent repositories - 7 downloads last month - 3 stars on GitHub - 1 maintainer
vcf-kit 0.2.9
Assorted utilities for the variant call format16 versions - Latest release: over 3 years ago - 1 dependent repositories - 202 downloads last month - 117 stars on GitHub - 2 maintainers
pyplink 1.3.7
Python module to read binary Plink files.13 versions - Latest release: 3 months ago - 2 dependent packages - 5 dependent repositories - 507 downloads last month - 14 stars on GitHub - 2 maintainers
openoligo 0.1.7
An open-source platform for programmatically interacting with and managing Nucleic acid sequences...8 versions - Latest release: 10 months ago - 54 downloads last month - 1 stars on GitHub - 2 maintainers
Top 4.7% on pypi.org
32 versions - Latest release: about 1 month ago - 5 dependent packages - 5 dependent repositories - 3.16 thousand downloads last month - 299 stars on GitHub - 3 maintainers
cellrank 2.0.4
CellRank: dynamics from multi-view single-cell data32 versions - Latest release: about 1 month ago - 5 dependent packages - 5 dependent repositories - 3.16 thousand downloads last month - 299 stars on GitHub - 3 maintainers
genotations 0.1.7
Genotations - python library to work with genomes and primers16 versions - Latest release: 8 months ago - 91 downloads last month - 2 stars on GitHub - 1 maintainer
nimagen 0.0.3
Simple statistical and visualisation tool for neuroimaging genetics studies3 versions - Latest release: about 1 year ago - 26 downloads last month - 0 stars on GitHub - 2 maintainers
scbamtools 0.5
High performance Cython + Python tools to process BAM files with tags as they arise in single-cel...3 versions - Latest release: about 2 months ago - 13 downloads last month - 1 stars on GitHub - 2 maintainers
bingenetic 2.1
convert binary data (in digital form) to genetic codes and further genetic codes back to binary data5 versions - Latest release: over 1 year ago - 1 dependent repositories - 20 downloads last month - 1 stars on GitHub - 2 maintainers
ezancestry 0.1.0
Easily predict and visualize genetic ancestry. Evaluate custom ancestry-informative SNP sets.8 versions - Latest release: 3 months ago - 1 dependent package - 1 dependent repositories - 172 downloads last month - 56 stars on GitHub - 2 maintainers
gennet-forked 2.0.0
Framework for Interpretable Neural Networks2 versions - Latest release: 6 days ago - 227 downloads last month - 84 stars on GitHub - 2 maintainers
gwip 1.0.0
An automatic genome-wide imputation pipeline.1 version - Latest release: about 9 years ago - 2 dependent repositories - 17 downloads last month - 30 stars on GitHub - 2 maintainers
brioche-enrichment 0.1.2a0
Bayesian tests for set enrichment.1 version - Latest release: 11 months ago - 20 downloads last month - 1 stars on GitHub - 2 maintainers
orthoevol 0.9.0a2
This package aids in the analysis of orthologous genes.1 version - Latest release: over 6 years ago - 1 dependent repositories - 10 downloads last month - 27 stars on GitHub - 4 maintainers
Top 1.7% on pypi.org
24 versions - Latest release: 11 months ago - 24 dependent packages - 109 dependent repositories - 7.27 thousand downloads last month - 4 maintainers
dendropy 4.6.1
A Python library for phylogenetics and phylogenetic computing: reading, writing, simulation, proc...24 versions - Latest release: 11 months ago - 24 dependent packages - 109 dependent repositories - 7.27 thousand downloads last month - 4 maintainers
jupyter-locuszoom 0.1.1.dev0 💰
Jupyter Widget for LocusZoom2 versions - Latest release: 11 months ago - 23 downloads last month - 4 stars on GitHub - 2 maintainers
genoml2 1.0.0b11
GenoML is an automated machine learning tool that optimizes basic machine learning pipelines for ...10 versions - Latest release: about 3 years ago - 1 dependent repositories - 59 downloads last month - 19 stars on GitHub - 2 maintainers
genetictabler 2.0.3
A time table scheduler using Genetic algorithm(s).12 versions - Latest release: about 1 year ago - 1 dependent repositories - 40 downloads last month - 3 stars on GitHub - 2 maintainers
chromax 0.0.4a0
Breeding simulator based on JAX4 versions - Latest release: 2 months ago - 1 dependent repositories - 40 downloads last month - 8 stars on GitHub - 2 maintainers
Top 8.1% on pypi.org
31 versions - Latest release: about 2 months ago - 4 dependent repositories - 1.91 thousand downloads last month - 139 stars on GitHub - 1 maintainer
lineage 4.4.0
tools for genetic genealogy and the analysis of consumer DNA test results31 versions - Latest release: about 2 months ago - 4 dependent repositories - 1.91 thousand downloads last month - 139 stars on GitHub - 1 maintainer
hlmm 1.3.0a1
Functions for fitting heteroskedastic linear (mixed) models to genetic data2 versions - Latest release: over 5 years ago - 1 dependent repositories - 9 downloads last month - 17 stars on GitHub - 2 maintainers
sisrs 0.1.0
Site Identification from Short Read Sequences.1 version - Latest release: about 6 years ago - 1 dependent repositories - 13 downloads last month - 0 stars on GitHub - 2 maintainers
simulatesv 0.2.0
Simulate structural variations and SNPs with artificial dna sequences4 versions - Latest release: almost 7 years ago - 1 dependent repositories - 12 downloads last month - 1 stars on GitHub - 1 maintainer
genet 0.15.1
GenET: Genome Editing Toolkit50 versions - Latest release: 10 days ago - 1 dependent repositories - 384 downloads last month - 11 stars on GitHub - 1 maintainer
mop-bam 0.0.6
Get well-mapped regions from bams13 versions - Latest release: almost 3 years ago - 1 dependent repositories - 103 downloads last month - 19 stars on GitHub - 2 maintainers
autopvs1-batch 2.0
A tool for batch run autoPVS11 version - Latest release: over 2 years ago - 1 dependent repositories - 14 downloads last month - 28 stars on GitHub - 2 maintainers
seq-pigeon 0.4.3
Pipeline tool for NGS data17 versions - Latest release: over 3 years ago - 1 dependent repositories - 89 downloads last month - 933 stars on GitHub - 2 maintainers
checkbed 0.2.8
A class for checking plink bed files6 versions - Latest release: over 9 years ago - 2 dependent repositories - 21 downloads last month - 1 stars on GitHub - 2 maintainers
fwdpy11 0.22.2
Forward-time population genetic simulation in Python106 versions - Latest release: about 1 month ago - 1 dependent repositories - 2.45 thousand downloads last month - 27 stars on GitHub - 1 maintainer
easyae 0.0.0
easy way for non-linear dimensionality increase or reduction1 version - Latest release: about 5 years ago - 1 dependent repositories - 15 downloads last month - 0 stars on GitHub - 2 maintainers
breedgym 0.0.1a0
Suite of Gymnasium environments for optimizing breeding programs1 version - Latest release: 6 months ago - 10 downloads last month - 1 stars on GitHub - 2 maintainers
genegist 0.1.5
Create summararies of groups of genes.6 versions - Latest release: 4 months ago - 51 downloads last month - 0 stars on GitHub - 1 maintainer
riboswitchinator 0.0.2
Tool to generate riboswitches for specific sequences2 versions - Latest release: about 1 year ago - 6 downloads last month - 0 stars on GitHub - 2 maintainers
easyae-samuel.revolinski 0.0.0
easy way for non-linear dimensionality increase or reduction1 version - Latest release: about 5 years ago - 16 downloads last month - 0 stars on GitHub - 2 maintainers
gene-fetchr 1.0.0b0
Search, retrieve, and scrape biological data from annotated genomes or public databases.1 version - Latest release: over 1 year ago - 12 downloads last month - 2 maintainers
gepyto 0.10.1
Utilities and tools to interface with genomic databases and to facilitate common bioinformatics t...3 versions - Latest release: over 8 years ago - 3 dependent repositories - 171 downloads last month - 7 stars on GitHub - 2 maintainers
Top 8.2% on pypi.org
52 versions - Latest release: 11 days ago - 1 dependent package - 7 dependent repositories - 680 downloads last month - 43 stars on GitHub - 8 maintainers
fastlmm 0.6.8
Fast GWAS52 versions - Latest release: 11 days ago - 1 dependent package - 7 dependent repositories - 680 downloads last month - 43 stars on GitHub - 8 maintainers
pyflagstats 0.1.4
Efficient subroutines for computing summary statistics for the SAM FLAG field5 versions - Latest release: over 4 years ago - 1 dependent repositories - 24 downloads last month - 15 stars on GitHub - 2 maintainers
dendropy-calver 2023.330.2
A Python library for phylogenetics and phylogenetic computing: reading, writing, simulation, proc...1 version - Latest release: about 1 year ago - 12 downloads last month - 0 stars on GitHub - 2 maintainers
fastlmmclib 0.0.3
Fast GWAS C library3 versions - Latest release: 9 months ago - 1 dependent repositories - 810 downloads last month - 0 stars on GitHub - 1 maintainer
locuspocus 1.1.0
Genetic coordinates made easy!7 versions - Latest release: about 4 years ago - 4 dependent repositories - 33 downloads last month - 10 stars on GitHub - 2 maintainers
genipe 1.5.0
An automatic genome-wide imputation pipeline.13 versions - Latest release: about 3 years ago - 3 dependent repositories - 106 downloads last month - 31 stars on GitHub - 2 maintainers
hybkit 0.3.3
Toolkit for analysis of chimeric (hybrid) RNA sequence data.6 versions - Latest release: 8 months ago - 1 dependent repositories - 46 downloads last month - 8 stars on GitHub - 2 maintainers
geonomics 1.4.1
A package for landscape genomic simulation68 versions - Latest release: 12 days ago - 7 dependent repositories - 656 downloads last month - 9 stars on GitHub - 1 maintainer
genbank-download 0.5
a small script to download nucleotide sequences from genbank using an accession number.1 version - Latest release: over 14 years ago - 2 dependent repositories - 12 downloads last month - 2 maintainers
datasnakes 0.1.1a1
This package helps in the analysis of orthologous genes.2 versions - Latest release: over 6 years ago - 1 dependent repositories - 11 downloads last month - 27 stars on GitHub - 2 maintainers
trifusion 1.0.2
Streamlining phylogenomic data gathering, processing and visualization35 versions - Latest release: over 5 years ago - 1 dependent repositories - 144 downloads last month - 86 stars on GitHub - 2 maintainers
vcf2networks 1.0.8
calculate Genotype Networks from VCF files18 versions - Latest release: over 10 years ago - 2 dependent repositories - 52 downloads last month - 2 maintainers
ponytools 0.2.3
Computational tools that you will ride into the FUTURE.11 versions - Latest release: about 5 years ago - 3 dependent repositories - 39 downloads last month - 1 stars on GitHub - 2 maintainers
vcfsynonymous 0.2.0
Detect synonymous genetic variants in VCF18 versions - Latest release: over 3 years ago - 1 dependent repositories - 73 downloads last month - 1 stars on GitHub - 2 maintainers
pydigree 1.0.1
A package for operations on pedigree and genotype data3 versions - Latest release: over 6 years ago - 1 dependent repositories - 16 downloads last month - 20 stars on GitHub - 2 maintainers
variant-extractor 4.0.6
Deterministic and standard extractor of indels, SNVs and structural variants (SVs) from VCF files6 versions - Latest release: about 1 year ago - 1 dependent package - 66 downloads last month - 3 stars on GitHub - 1 maintainer
buddysuite 1.4.0
BuddySuite is a collection of command line utilities written in Python for working with biologica...14 versions - Latest release: over 2 years ago - 1 dependent repositories - 83 downloads last month - 121 stars on GitHub - 1 maintainer
cutevariant 0.4.5 💰
GUI to visualize and process variant data36 versions - Latest release: about 1 year ago - 1 dependent repositories - 296 downloads last month - 89 stars on GitHub - 2 maintainers
stirplate 1.4.0
Stirplate Data Uploader5 versions - Latest release: over 7 years ago - 2 dependent repositories - 18 downloads last month - 0 stars on GitHub - 2 maintainers
epistasis 0.7.5
A Python API for estimating statistical high-order epistasis in genotype-phenotype maps.17 versions - Latest release: over 2 years ago - 3 dependent repositories - 112 downloads last month - 32 stars on GitHub - 6 maintainers
gnomad-db 0.1.4
This package scales the huge gnomAD files to a SQLite database, which is easy and fast to query. ...13 versions - Latest release: 6 months ago - 1 dependent repositories - 178 downloads last month - 27 stars on GitHub - 1 maintainer
ibd-dendrogram 0.12.4
module that helps to form a dendrogram9 versions - Latest release: 4 months ago - 51 downloads last month - 0 stars on GitHub - 2 maintainers
evolution-of-algebraic-terms 1.8.7
EAT is software implementation of the algorithms described in the paper Evolution of Algebraic Te...1 version - Latest release: 3 months ago - 8 downloads last month - 1 stars on GitHub - 2 maintainers
page-enrichment 0.1.4
Parametric Analysis of Gene Set Enrichment (PAGE).2 versions - Latest release: almost 3 years ago - 1 dependent repositories - 19 downloads last month - 0 stars on GitHub - 2 maintainers
lzgraphs 1.0.2
An Implementation of LZ76 Based Graphs for Repertoire Representation and Analysis11 versions - Latest release: about 2 months ago - 51 downloads last month - 4 stars on GitHub - 2 maintainers
gpmap 0.7.0
A Python API for managing genotype-phenotype map data15 versions - Latest release: almost 4 years ago - 7 dependent repositories - 137 downloads last month - 11 stars on GitHub - 6 maintainers
ibdcluster 1.2.9
A CLI tool to help identify ibd sharing within networks across a locus of interest at biobank sca...7 versions - Latest release: about 1 year ago - 34 downloads last month - 0 stars on GitHub - 2 maintainers
Top 9.9% on pypi.org
1 version - Latest release: over 1 year ago - 1 dependent package - 693 downloads last month - 114 stars on GitHub - 2 maintainers
elucidatacmappy 3.3.4
Assorted tools for interacting with .gct, .gctx files and other Connectivity Map (Broad Institute...1 version - Latest release: over 1 year ago - 1 dependent package - 693 downloads last month - 114 stars on GitHub - 2 maintainers
Top 8.8% on pypi.org
36 versions - Latest release: over 5 years ago - 2 dependent packages - 1 dependent repositories - 1.61 thousand downloads last month - 114 stars on GitHub - 4 maintainers
cmappy 4.0.1
Assorted tools for interacting with .gct, .gctx files and other Connectivity Map (Broad Institute...36 versions - Latest release: over 5 years ago - 2 dependent packages - 1 dependent repositories - 1.61 thousand downloads last month - 114 stars on GitHub - 4 maintainers
vcfio 1.1.9
A simple and efficient VCF manipulation package.9 versions - Latest release: 3 months ago - 1 dependent repositories - 813 downloads last month - 6 stars on GitHub - 2 maintainers
parett 1.0.1
Python Automated Retrieval of TimeTree data1 version - Latest release: almost 2 years ago - 11 downloads last month - 1 stars on GitHub - 2 maintainers
varfish-cli 0.6.3
Command line interface client for VarFish Server.22 versions - Latest release: 4 months ago - 4 dependent repositories - 258 downloads last month - 2 stars on GitHub - 1 maintainer
genebe 0.0.17
GeneBe Client: A user-friendly system for annotating genetic variants14 versions - Latest release: 2 months ago - 78 downloads last month - 1 stars on GitHub - 2 maintainers
cai 1.0.3
Python implementation of codon adaptation index7 versions - Latest release: over 5 years ago - 1 dependent repositories - 126 downloads last month - 26 stars on GitHub - 2 maintainers
hchacha 1.0.5
Human CHromosome Accession CHAnge - Convert between different human chromosome naming systems (of...6 versions - Latest release: 10 months ago - 35 downloads last month - 1 maintainer
tcga 0.0.22
Computational biology & bioinformatics utils20 versions - Latest release: about 3 years ago - 1 dependent repositories - 98 downloads last month - 3 stars on GitHub - 2 maintainers
moose-classifier 0.9
Alignment based taxonomic classifier4 versions - Latest release: over 2 years ago - 1 dependent repositories - 23 downloads last month - 0 stars on GitHub - 1 maintainer
gene-normalizer 0.2.10
VICC normalization routine for genes51 versions - Latest release: 10 months ago - 4 dependent packages - 6 dependent repositories - 2.72 thousand downloads last month - 1 stars on GitHub - 3 maintainers
snipar 0.0.18
Library and command line scripts for inferring identity-by-descent (IBD) segments shared between ...14 versions - Latest release: 10 months ago - 1 dependent repositories - 781 downloads last month - 22 stars on GitHub - 3 maintainers
genome-to-sqlite 0.1
Import your genome into a SQLite database1 version - Latest release: over 4 years ago - 1 dependent repositories - 7 downloads last month - 21 stars on GitHub - 2 maintainers
codons 0.0.10
Translates and transcribes an arbitrary genetic sequence, generates FASTA-formatted files, and in...10 versions - Latest release: about 2 years ago - 29 downloads last month - 0 stars on GitHub - 2 maintainers
drive-ibd 2.7.1
cli tool to identify networks of individuals who share IBD segments overlapping loci of interest34 versions - Latest release: 18 days ago - 277 downloads last month - 0 stars on GitHub - 4 maintainers
seq-dove 0.4.4
Set of tools for downstream vcf analysis24 versions - Latest release: over 3 years ago - 1 dependent repositories - 112 downloads last month - 1 maintainer
mutalyzer-algebra 1.5.1
A Boolean Algebra for Genetic Variants20 versions - Latest release: 4 months ago - 2 dependent packages - 1 dependent repositories - 108 downloads last month - 10 stars on GitHub - 2 maintainers
rnacounter 1.5.2
Estimate abundances of genomic features from read densities14 versions - Latest release: about 9 years ago - 2 dependent repositories - 25 downloads last month - 1 stars on GitHub - 4 maintainers
bamnostic 1.1.10
Pure Python, OS-agnostic Binary Alignment Map (BAM) random access and parsing tool54 versions - Latest release: about 1 year ago - 2 dependent packages - 1 dependent repositories - 744 downloads last month - 94 stars on GitHub - 2 maintainers
leapdna 0.1.0
A Python 3.9 implementation of the leapdna toolkit1 version - Latest release: about 3 years ago - 1 dependent repositories - 10 downloads last month - 0 stars on GitHub - 1 maintainer
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bioinformatics
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genomics
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evolution
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