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
genegist 0.1.5
Create summararies of groups of genes.6 versions - Latest release: 5 months ago - 48 downloads last month - 0 stars on GitHub - 1 maintainer
Top 1.7% on pypi.org
28 versions - Latest release: 12 months ago - 33 dependent packages - 109 dependent repositories - 6.94 thousand downloads last month - 3 maintainers
dendropy 4.6.1
A Python library for phylogenetics and phylogenetic computing: reading, writing, simulation, proc...28 versions - Latest release: 12 months ago - 33 dependent packages - 109 dependent repositories - 6.94 thousand downloads last month - 3 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 - 1 maintainer
easyae-samuel.revolinski 0.0.0
easy way for non-linear dimensionality increase or reduction1 version - Latest release: over 5 years ago - 11 downloads last month - 0 stars on GitHub - 1 maintainer
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 - 161 downloads last month - 7 stars on GitHub - 1 maintainer
Top 8.2% on pypi.org
52 versions - Latest release: about 1 month ago - 1 dependent package - 7 dependent repositories - 535 downloads last month - 43 stars on GitHub - 4 maintainers
fastlmm 0.6.8
Fast GWAS52 versions - Latest release: about 1 month ago - 1 dependent package - 7 dependent repositories - 535 downloads last month - 43 stars on GitHub - 4 maintainers
wgse-ng 1.0.0a3
Whole Genome Sequencing data manipulation tool17 versions - Latest release: 16 days ago - 1.74 thousand downloads last month - 2 stars on GitHub - 1 maintainer
Top 8.5% on pypi.org
8 versions - Latest release: about 1 month ago - 2 dependent packages - 5 dependent repositories - 1.42 thousand downloads last month - 213 stars on GitHub - 1 maintainer
sgkit 0.8.0
Statistical genetics toolkit8 versions - Latest release: about 1 month ago - 2 dependent packages - 5 dependent repositories - 1.42 thousand downloads last month - 213 stars on GitHub - 1 maintainer
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 - 15 downloads last month - 15 stars on GitHub - 1 maintainer
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: 9 months ago - 1 dependent repositories - 48 downloads last month - 5 stars on GitHub - 1 maintainer
datasnakes 0.1.1a1
This package helps in the analysis of orthologous genes.2 versions - Latest release: over 6 years ago - 1 dependent repositories - 5 downloads last month - 27 stars on GitHub - 1 maintainer
fastlmmclib 0.0.3
Fast GWAS C library3 versions - Latest release: 10 months ago - 2 dependent packages - 1 dependent repositories - 522 downloads last month - 0 stars on GitHub - 1 maintainer
vcf2networks 1.0.8
calculate Genotype Networks from VCF files18 versions - Latest release: over 10 years ago - 2 dependent repositories - 191 downloads last month - 1 maintainer
trifusion 1.0.2
Streamlining phylogenomic data gathering, processing and visualization35 versions - Latest release: over 5 years ago - 1 dependent repositories - 164 downloads last month - 87 stars on GitHub - 1 maintainer
locuspocus 1.1.0
Genetic coordinates made easy!7 versions - Latest release: about 4 years ago - 4 dependent repositories - 23 downloads last month - 10 stars on GitHub - 1 maintainer
genipe 1.5.0
An automatic genome-wide imputation pipeline.13 versions - Latest release: over 3 years ago - 3 dependent repositories - 81 downloads last month - 30 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 - 15 downloads last month - 1 maintainer
hybkit 0.3.3
Toolkit for analysis of chimeric (hybrid) RNA sequence data.6 versions - Latest release: 9 months ago - 1 dependent repositories - 35 downloads last month - 8 stars on GitHub - 1 maintainer
Top 8.8% on pypi.org
90 versions - Latest release: over 4 years ago - 6 dependent repositories - 372 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 - 372 downloads last month - 97 stars on GitHub - 2 maintainers
cutevariant 0.4.5 💰
GUI to visualize and process variant data36 versions - Latest release: about 1 year ago - 1 dependent repositories - 152 downloads last month - 89 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 - 20 downloads last month - 20 stars on GitHub - 1 maintainer
vcfsynonymous 0.2.0
Detect synonymous genetic variants in VCF18 versions - Latest release: over 3 years ago - 1 dependent repositories - 218 downloads last month - 1 stars on GitHub - 1 maintainer
ponytools 0.2.3
Computational tools that you will ride into the FUTURE.11 versions - Latest release: about 5 years ago - 3 dependent repositories - 48 downloads last month - 1 stars on GitHub - 1 maintainer
stirplate 1.4.0
Stirplate Data Uploader5 versions - Latest release: almost 8 years ago - 2 dependent repositories - 36 downloads last month - 0 stars on GitHub - 1 maintainer
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 - 27 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 - 69 downloads last month - 121 stars on GitHub - 1 maintainer
ibd-dendrogram 0.12.4
module that helps to form a dendrogram9 versions - Latest release: 4 months ago - 52 downloads last month - 0 stars on GitHub - 1 maintainer
epistasis 0.7.5
A Python API for estimating statistical high-order epistasis in genotype-phenotype maps.17 versions - Latest release: almost 3 years ago - 3 dependent repositories - 98 downloads last month - 32 stars on GitHub - 3 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 - 13 downloads last month - 1 stars on GitHub - 1 maintainer
page-enrichment 0.1.4
Parametric Analysis of Gene Set Enrichment (PAGE).2 versions - Latest release: about 3 years ago - 1 dependent repositories - 21 downloads last month - 0 stars on GitHub - 1 maintainer
lzgraphs 1.0.2
An Implementation of LZ76 Based Graphs for Repertoire Representation and Analysis11 versions - Latest release: 2 months ago - 43 downloads last month - 4 stars on GitHub - 1 maintainer
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: 7 months ago - 1 dependent repositories - 167 downloads last month - 27 stars on GitHub - 1 maintainer
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 - 41 downloads last month - 0 stars on GitHub - 1 maintainer
gpmap 0.7.0
A Python API for managing genotype-phenotype map data15 versions - Latest release: almost 4 years ago - 7 dependent repositories - 96 downloads last month - 11 stars on GitHub - 3 maintainers
breedgym 0.0.1a0
Suite of Gymnasium environments for optimizing breeding programs2 versions - Latest release: 6 months ago - 9 downloads last month - 1 stars on GitHub - 1 maintainer
varfish-cli 0.6.3
Command line interface client for VarFish Server.22 versions - Latest release: 4 months ago - 4 dependent repositories - 288 downloads last month - 2 stars on GitHub - 1 maintainer
vcfio 1.1.9
A simple and efficient VCF manipulation package.9 versions - Latest release: 4 months ago - 1 dependent repositories - 1.05 thousand downloads last month - 6 stars on GitHub - 1 maintainer
hchacha 1.0.5
Human CHromosome Accession CHAnge - Convert between different human chromosome naming systems (of...6 versions - Latest release: 11 months ago - 48 downloads last month - 1 maintainer
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 - 1 maintainer
moose-classifier 0.9
Alignment based taxonomic classifier4 versions - Latest release: over 2 years ago - 1 dependent repositories - 28 downloads last month - 0 stars on GitHub - 1 maintainer
tcga 0.0.22
Computational biology & bioinformatics utils20 versions - Latest release: about 3 years ago - 1 dependent repositories - 150 downloads last month - 3 stars on GitHub - 1 maintainer
gene-normalizer 0.2.10
VICC normalization routine for genes51 versions - Latest release: 11 months ago - 4 dependent packages - 6 dependent repositories - 1.73 thousand downloads last month - 1 stars on GitHub - 3 maintainers
drive-ibd 2.7.1
cli tool to identify networks of individuals who share IBD segments overlapping loci of interest34 versions - Latest release: about 1 month ago - 242 downloads last month - 0 stars on GitHub - 2 maintainers
snipar 0.0.18
Library and command line scripts for inferring identity-by-descent (IBD) segments shared between ...14 versions - Latest release: 11 months ago - 1 dependent repositories - 304 downloads last month - 22 stars on GitHub - 2 maintainers
genome-to-sqlite 0.1
Import your genome into a SQLite database1 version - Latest release: over 4 years ago - 1 dependent repositories - 5 downloads last month - 20 stars on GitHub - 1 maintainer
geonomics 1.4.1
A package for landscape genomic simulation70 versions - Latest release: about 1 month ago - 7 dependent repositories - 565 downloads last month - 9 stars on GitHub - 1 maintainer
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 - 47 downloads last month - 0 stars on GitHub - 1 maintainer
seq-dove 0.4.4
Set of tools for downstream vcf analysis24 versions - Latest release: over 3 years ago - 1 dependent repositories - 131 downloads last month - 1 maintainer
greatbrowser 0.0.1
Automate Stanford's GREAT browser8 versions - Latest release: 21 days ago - 1.6 thousand downloads last month - 0 stars on GitHub - 1 maintainer
mutalyzer-algebra 1.5.1
A Boolean Algebra for Genetic Variants20 versions - Latest release: 5 months ago - 2 dependent packages - 1 dependent repositories - 153 downloads last month - 10 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 - 7 downloads last month - 27 stars on GitHub - 2 maintainers
rnacounter 1.5.2
Estimate abundances of genomic features from read densities14 versions - Latest release: over 9 years ago - 2 dependent repositories - 59 downloads last month - 1 stars on GitHub - 2 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 - 3 dependent packages - 1 dependent repositories - 643 downloads last month - 94 stars on GitHub - 1 maintainer
scbamtools 0.5
High performance Cython + Python tools to process BAM files with tags as they arise in single-cel...4 versions - Latest release: 3 months ago - 21 downloads last month - 1 stars on GitHub - 1 maintainer
seq-pigeon 0.4.3
Pipeline tool for NGS data17 versions - Latest release: over 3 years ago - 1 dependent repositories - 35 downloads last month - 942 stars on GitHub - 1 maintainer
warpedlmm 0.21
Warped linear mixed model7 versions - Latest release: about 9 years ago - 1 dependent repositories - 48 downloads last month - 1 maintainer
Top 7.9% on pypi.org
8 versions - Latest release: over 3 years ago - 1 dependent package - 12 dependent repositories - 140 downloads last month - 49 stars on GitHub - 1 maintainer
plinkio 0.9.8
A library for parsing plink genotype files8 versions - Latest release: over 3 years ago - 1 dependent package - 12 dependent repositories - 140 downloads last month - 49 stars on GitHub - 1 maintainer
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 - 13 downloads last month - 0 stars on GitHub - 1 maintainer
leapdna 0.1.0
A Python 3.9 implementation of the leapdna toolkit1 version - Latest release: about 3 years ago - 1 dependent repositories - 9 downloads last month - 0 stars on GitHub - 1 maintainer
j11hail 99.2.58
Scalable library for exploring and analyzing genomic data.4 versions - Latest release: over 3 years ago - 1 dependent repositories - 47 downloads last month - 925 stars on GitHub - 2 maintainers
pysumstats 0.5.2
Package for working with GWAS summary statistics20 versions - Latest release: over 3 years ago - 1 dependent repositories - 152 downloads last month - 0 stars on GitHub - 1 maintainer
genebe 0.0.18
GeneBe Client: A user-friendly system for annotating genetic variants15 versions - Latest release: 16 days ago - 330 downloads last month - 1 stars on GitHub - 1 maintainer
cpg-hail 0.2.90
Scalable library for exploring and analyzing genomic data.6 versions - Latest release: about 2 years ago - 1 dependent repositories - 36 downloads last month - 925 stars on GitHub - 2 maintainers
genrisk 0.3.1
Comprehensive genetic risk assessment19 versions - Latest release: 7 months ago - 1 dependent repositories - 209 downloads last month - 7 stars on GitHub - 1 maintainer
scarv 0.5
Selective Constraint Against Rare Variants1 version - Latest release: over 2 years ago - 1 dependent repositories - 12 downloads last month - 0 stars on GitHub - 1 maintainer
bioprot 0.2.0
A package for DNA, RNA and protein sequence manipulation1 version - Latest release: 16 days ago - 0 stars on GitHub
rrat 0.6
Ribosomal RNA Allele Tree6 versions - Latest release: about 6 years ago - 1 dependent repositories - 34 downloads last month - 0 stars on GitHub - 1 maintainer
grstools 0.4.0
Tools to manipulate genetic risk scores.3 versions - Latest release: over 5 years ago - 1 dependent repositories - 49 downloads last month - 4 stars on GitHub - 1 maintainer
cada-prio 0.6.1
Phenotype-based prioritization of variants with CADA8 versions - Latest release: 7 months ago - 26 downloads last month - 0 stars on GitHub - 1 maintainer
vencode 1.2.0
Package to get VEnCodes as in Macedo and Gontijo, 201918 versions - Latest release: over 3 years ago - 1 dependent repositories - 145 downloads last month - 0 stars on GitHub - 1 maintainer
geneparse 0.8.2
A suite of parse for genotype formats.17 versions - Latest release: about 1 year ago - 3 dependent repositories - 214 downloads last month - 4 stars on GitHub - 1 maintainer
genetest 0.6.0
A package to process and analyze genotypic and phenotypic data.8 versions - Latest release: over 2 years ago - 1 dependent repositories - 92 downloads last month - 3 stars on GitHub - 1 maintainer
sbsgenerator 1.0.5
Blazingly fast SBS matrix generator library7 versions - Latest release: 3 months ago - 1.81 thousand downloads last month - 0 stars on GitHub - 1 maintainer
tidy-vcf 0.1.2.6
Make tidy VCF data.4 versions - Latest release: 3 months ago - 1 dependent repositories - 36 downloads last month - 3 stars on GitHub - 1 maintainer
pybgen 0.7.1
Python module to read BGEN files.11 versions - Latest release: over 3 years ago - 1 dependent package - 4 dependent repositories - 225 downloads last month - 5 stars on GitHub - 1 maintainer
Top 2.1% on pypi.org
58 versions - Latest release: 4 months ago - 16 dependent packages - 83 dependent repositories - 5.33 thousand downloads last month - 167 stars on GitHub - 2 maintainers
msprime 1.3.1
Simulate genealogical trees and genomic sequence data using population genetic models58 versions - Latest release: 4 months ago - 16 dependent packages - 83 dependent repositories - 5.33 thousand downloads last month - 167 stars on GitHub - 2 maintainers
Top 2.4% on pypi.org
150 versions - Latest release: about 2 months ago - 10 dependent packages - 43 dependent repositories - 40.5 thousand downloads last month - 925 stars on GitHub - 2 maintainers
hail 0.2.130
Scalable library for exploring and analyzing genomic data.150 versions - Latest release: about 2 months ago - 10 dependent packages - 43 dependent repositories - 40.5 thousand downloads last month - 925 stars on GitHub - 2 maintainers
gennet-forked 2.0.0
Framework for Interpretable Neural Networks2 versions - Latest release: 27 days ago - 1 dependent package - 227 downloads last month - 84 stars on GitHub - 1 maintainer
Top 9.9% on pypi.org
1 version - Latest release: over 1 year ago - 1 dependent package - 681 downloads last month - 117 stars on GitHub - 1 maintainer
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 - 681 downloads last month - 117 stars on GitHub - 1 maintainer
Top 8.8% on pypi.org
36 versions - Latest release: over 5 years ago - 2 dependent packages - 1 dependent repositories - 1.82 thousand downloads last month - 117 stars on GitHub - 2 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 - 1.82 thousand downloads last month - 117 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 - 176 downloads last month - 26 stars on GitHub - 1 maintainer
jupyter-locuszoom 0.1.1.dev0 💰
Jupyter Widget for LocusZoom2 versions - Latest release: 11 months ago - 23 downloads last month - 4 stars on GitHub - 1 maintainer
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 - 1 maintainer
gpubs 6
Pipeline to download and annotate gene-related publications6 versions - Latest release: 10 months ago - 15 downloads last month - 1 maintainer
openoligo 0.1.7
An open-source platform for programmatically interacting with and managing Nucleic acid sequences...8 versions - Latest release: 11 months ago - 54 downloads last month - 1 stars on GitHub - 1 maintainer
chromax 0.0.4a0
Breeding simulator based on JAX4 versions - Latest release: 3 months ago - 1 dependent repositories - 40 downloads last month - 8 stars on GitHub - 1 maintainer
riboswitchinator 0.0.2
Tool to generate riboswitches for specific sequences2 versions - Latest release: over 1 year ago - 6 downloads last month - 0 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 - 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 - 1 maintainer
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 - 1 maintainer
pytoxo 1.2
A Python tool to calculate penetrance tables for high-order epistasis models3 versions - Latest release: about 2 years ago - 1 dependent repositories - 32 downloads last month - 2 stars on GitHub - 1 maintainer
pyplink 1.3.7
Python module to read binary Plink files.13 versions - Latest release: 4 months ago - 2 dependent packages - 5 dependent repositories - 507 downloads last month - 14 stars on GitHub - 1 maintainer
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 - 2 maintainers
pygenclean 1.8.3
Automated data clean up pipeline for genetic data6 versions - Latest release: about 7 years ago - 1 dependent repositories - 49 downloads last month - 3 stars on GitHub - 1 maintainer
proofreader-polymerase 0.1.0
DNA proofreading1 version - Latest release: over 2 years ago - 1 dependent repositories - 12 downloads last month - 1 stars on GitHub - 1 maintainer
picus 0.0.5
Pointed Interpretation of Clinical Variant Significance5 versions - Latest release: over 3 years ago - 1 dependent repositories - 32 downloads last month - 0 stars on GitHub - 1 maintainer
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 - 1 maintainer
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 - 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 - 1 maintainer
mitopipeline 1.1.post8
Mitochondrial Genome Pipeline16 versions - Latest release: almost 5 years ago - 1 dependent repositories - 81 downloads last month - 4 stars on GitHub - 1 maintainer
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 - 1 maintainer
Related Keywords
bioinformatics
61
genomics
38
python
29
biology
15
vcf
12
gwas
11
dna
9
variant
8
genome
7
evolution
6
statistics
6
phylogenetics
6
sequencing
5
machine-learning
5
ncbi
4
data-science
4
blast
4
plink
4
pipeline
4
analysis
4
linear
3
mixed
3
simulation
3
genes
3
chromosomes
3
genotype
3
next
3
orthologues
3
generation
3
python3
3
software
3
data
3
format
3
coalescent
3
fasta
3
population genetics
3
population-genetics
3
pandas
3
DNA
3
reader
3
sequence
3
dimensionality-reduction
3
genetic
3
rna
3
hail
3
nonlinear
3
relatedness
3
annotations
2
neural-networks
2
gct
2
codons
2
discovery
2
human
2
deep-learning
2
bioinformatics-pipeline
2
binary
2
hgvs
2
imputation
2
package
2
bam
2
variant-prioritization
2
variant-filtration
2
varfish
2
variants
2
Breeding
2
snps
2
gnomad
2
open-source
2
population-genomics
2
computational
2
ai
2
files
2
genotype-phenotype-maps
2
epistasis
2
IBD
2
grp
2
protein
2
ancestry
2
alignment
2
gene
2
Institute
2
Broad
2
variant-analysis
2
model
2
CMap
2
Map
2
Connectivity
2
file-manipulation
2
bgen
2
gctx
2
VCF
2
orthology-inference
2
orthology
2
orthologs
2
ftp
2
biosql
2
spectral-analysis
2
bash
2
phyloinformatics
2
spectral-clustering
2