Ecosyste.ms: Packages
An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.
pypi.org "bioinformatics" keyword
multiqc-sgr 1.21.4
Create aggregate bioinformatics analysis reports across many samples and tools8 versions - Latest release: 6 days ago - 258 downloads last month - 0 stars on GitHub - 1 maintainer
antidb 2024.4.6
The simplest index-and-search engine for huge multiline text files. Focused primarily on bioinfor...6 versions - Latest release: about 1 month ago - 85 downloads last month - 0 stars on GitHub - 1 maintainer
sbsgenerator 1.0.5
Blazingly fast SBS matrix generator library7 versions - Latest release: 2 months ago - 1.81 thousand downloads last month - 0 stars on GitHub - 1 maintainer
edrn.rdf 1.3.7
EDRN RDF Server28 versions - Latest release: over 5 years ago - 2 dependent repositories - 27 downloads last month - 0 stars on GitHub - 2 maintainers
dockerasmus 0.1.1
An easy to use docking library.2 versions - Latest release: about 7 years ago - 1 dependent repositories - 43 downloads last month - 0 stars on GitLab.com - 1 maintainer
badlon 0.1.3
A bioinf tool for analyzing pan-genome and other features based on synteny blocks4 versions - Latest release: about 1 year ago - 44 downloads last month - 0 stars on GitHub - 1 maintainer
pdb-tools-removed-atom-limit 2.4.5
A swiss army knife for PDB files, customized to avoid the original atom limit.1 version - Latest release: almost 2 years ago - 1 dependent repositories - 7 downloads last month - 0 stars on GitHub - 1 maintainer
pfb-fhir 0.0.8
Render a PFB graph from FHIR data5 versions - Latest release: almost 2 years ago - 1 dependent repositories - 58 downloads last month - 0 stars on GitHub - 1 maintainer
peyutil 0.0.4
Utility functions used by other python packages written by the Open Tree of Life team4 versions - Latest release: about 3 years ago - 1 dependent repositories - 17 downloads last month - 0 stars on GitHub - 1 maintainer
seqr-loader 1.2.5
The hail scripts in this repo can be used to pre-process variant callsets and export them to elas...18 versions - Latest release: about 2 years ago - 1 dependent repositories - 109 downloads last month - 0 stars on GitHub - 1 maintainer
pydiopt 0.1.2
pyDIOPT - Python Wrapper for DIOPT3 versions - Latest release: 4 days ago - 285 downloads last month - 0 stars on GitHub - 1 maintainer
goapfp 0.0.dev8
Utility tools to work with the Gene Ontology in Python7 versions - Latest release: 7 months ago - 50 downloads last month - 0 stars on GitHub - 1 maintainer
fastqc_sqlite 0.13
store FastQC data/summary in sqlitedb12 versions - Latest release: about 8 years ago - 2 dependent repositories - 46 downloads last month - 0 stars on GitHub - 1 maintainer
sample-metadata 5.7.2
Python API for interacting with the Sample API system40 versions - Latest release: 12 months ago - 6 dependent repositories - 119 downloads last month - 0 stars on GitHub - 2 maintainers
fastqc_db 0.34
store FastQC data/summary in sqlitedb19 versions - Latest release: over 6 years ago - 2 dependent repositories - 24 downloads last month - 0 stars on GitHub - 1 maintainer
wisestork 0.1.2
Within-sample CNV calling3 versions - Latest release: almost 5 years ago - 1 dependent repositories - 40 downloads last month - 0 stars on GitHub - 1 maintainer
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
pgx-pipe-helper 0.0.4
Simple helper for common functionality2 versions - Latest release: over 4 years ago - 1 dependent repositories - 25 downloads last month - 0 stars on GitHub - 1 maintainer
s-rna-tools 0.0.3
Tools for handling Small RNA sequences.3 versions - Latest release: over 1 year ago - 11 downloads last month - 0 stars on GitHub - 1 maintainer
edrn.summarizer 0.0.7
EDRN Summarizer Server8 versions - Latest release: almost 7 years ago - 2 dependent repositories - 26 downloads last month - 0 stars on GitHub - 2 maintainers
alphabetsoup 0.5.3
tile phylogenetic space with subtrees7 versions - Latest release: almost 4 years ago - 43 downloads last month - 0 stars on GitHub - 1 maintainer
libbiosmoother 1.5.1
On-the-fly processing of interactome data16 versions - Latest release: 13 days ago - 1 dependent package - 985 downloads last month - 0 stars on GitHub - 1 maintainer
cogor 0.5
Package for improving the functional annotation of bacterial genomes, classification of protein-c...5 versions - Latest release: almost 2 years ago - 20 downloads last month - 0 stars on GitHub - 1 maintainer
biodatatypes 0.2.1
Nucleotide, amino acid, and codon datatypes for Python2 versions - Latest release: 11 months ago - 27 downloads last month - 0 stars on GitHub - 1 maintainer
getisolationsources 1.5.2
Retrieves isolation sources from NCBI given the set of sequences with specified accession numbers...2 versions - Latest release: almost 7 years ago - 1 dependent repositories - 9 downloads last month - 0 stars on GitHub - 1 maintainer
medmolnet 1.0.4
create sub networks5 versions - Latest release: almost 2 years ago - 29 downloads last month - 0 stars on GitHub - 1 maintainer
opencarp-analyzer 1.0.7 💰
OpenCARP Trace Analyzer8 versions - Latest release: about 3 years ago - 1 dependent repositories - 9 downloads last month - 0 stars on GitHub - 1 maintainer
ce-detector 0.2.1
A program used to detect Cryptic Exon.6 versions - Latest release: over 3 years ago - 1 dependent repositories - 59 downloads last month - 0 stars on GitHub - 1 maintainer
pyopossum3 0.2
SQLAlchemy-based interface to the oPOSSUM3 transcription factor binding database.2 versions - Latest release: about 10 years ago - 2 dependent repositories - 11 downloads last month - 0 stars on GitHub - 1 maintainer
ogilo-array 0.0.2
Automated construction of oligo library sequences for oligo array synthesis.2 versions - Latest release: 11 months ago - 16 downloads last month - 0 stars on GitHub - 1 maintainer
sccross 1.0.4
Single cell multi-omics cross modal generation, multi-omics simulation and perturbation5 versions - Latest release: 7 days ago - 116 downloads last month - 0 stars on GitHub - 1 maintainer
scomix 0.0.1
Python package for analysis of data from single-cell data-science.1 version - Latest release: over 3 years ago - 1 dependent repositories - 5 downloads last month - 0 stars on GitHub - 1 maintainer
bio-jtools 0.2.3
Various bioinformatics tools in one package4 versions - Latest release: over 4 years ago - 1 dependent repositories - 63 downloads last month - 0 stars on GitHub - 1 maintainer
bamplot 0.9.0
bamplot python package1 version - Latest release: almost 8 years ago - 1 dependent repositories - 27 downloads last month - 0 stars on GitHub - 1 maintainer
bidali 0.1.16
Biological Data Analysis Library16 versions - Latest release: almost 6 years ago - 3 dependent repositories - 84 downloads last month - 0 stars on GitHub - 1 maintainer
bfasta 0.1.1
Simple fasta reader with no dependencies2 versions - Latest release: about 1 year ago - 29 downloads last month - 0 stars on GitHub - 1 maintainer
versionix 0.2.4
Get version of any tools5 versions - Latest release: 4 months ago - 1 dependent package - 1 dependent repositories - 411 downloads last month - 0 stars on GitHub - 1 maintainer
phanatic 2.2.4
Python package to run de novo bacteriophage assembly container.5 versions - Latest release: 11 days ago - 17 downloads last month - 0 stars on GitHub - 1 maintainer
piomart 0.8.2
Tool to query Ensemble restful api and get gene info5 versions - Latest release: over 5 years ago - 1 dependent repositories - 17 downloads last month - 0 stars on GitLab.com - 1 maintainer
cpg-utils 5.0.10
Library of convenience functions specific to the CPG102 versions - Latest release: 4 days ago - 3 dependent repositories - 4.07 thousand downloads last month - 0 stars on GitHub - 2 maintainers
pypro2 0.0.1 removed
Calculating a range of protein descriptors using their physiochemical, biological and structural ...1 version - Latest release: over 1 year ago - 0 stars on GitHub
sample-metadata-ms 0.7.1
Python API for interacting with the Sample API system (MS version)10 versions - Latest release: over 1 year ago - 1 dependent repositories - 37 downloads last month - 0 stars on GitHub - 1 maintainer
kmer-counter 0.2.1
Count kmers in regions or at SNVs or at indel breakpoints.2 versions - Latest release: over 2 years ago - 1 dependent repositories - 22 downloads last month - 0 stars on GitHub - 1 maintainer
ga4gh.vrsatile.pydantic 0.2.0
"Translation of the GA4GH VRS and VRSATILE Schemas to a Pydantic data model"24 versions - Latest release: 8 months ago - 7 dependent packages - 10 dependent repositories - 189 downloads last month - 0 stars on GitHub - 3 maintainers
bioprot 0.2.0
A package for DNA, RNA and protein sequence manipulation1 version - Latest release: 4 days ago - 0 stars on GitHub
carabiner-tools 0.0.2
Useful utilities.4 versions - Latest release: 28 days ago - 1 dependent package - 29 downloads last month - 0 stars on GitHub - 1 maintainer
feature-merge 1.3.0
Merge overlapping features of GFF/GTF files.7 versions - Latest release: over 3 years ago - 1 dependent repositories - 34 downloads last month - 0 stars on GitHub - 2 maintainers
radsim 0.1.2
RADsim: simulate reduced-represention sequencing platforms based on restriction digestion, includ...3 versions - Latest release: over 2 years ago - 2 dependent repositories - 20 downloads last month - 0 stars on GitHub - 1 maintainer
rsna 0.0.1 removed
Mini library for the RSNA-MICCAI Brain Tumor Radiogenomic Classification Kaggle Competition1 version - Latest release: over 2 years ago - 6 downloads last month - 0 stars on GitHub
geneflow3 3.0.0a1
A light-weight, extendable workflow engine for scientific computing.1 version - Latest release: over 2 years ago - 1 dependent repositories - 17 downloads last month - 0 stars on GitHub - 1 maintainer
tcrpmhcdataset 0.1.0
Handling Many-to-many TCR::Peptide-MHC Data1 version - Latest release: about 1 month ago - 46 downloads last month - 0 stars on GitHub - 1 maintainer
bio-network-ayelet-tohar 0.1.2
create sub networks3 versions - Latest release: almost 2 years ago - 43 downloads last month - 0 stars on GitHub - 1 maintainer
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
zfq 1.0.0
FastQ file compressor1 version - Latest release: 4 months ago - 56 downloads last month - 0 stars on GitHub - 1 maintainer
makura 1.2.0
NCBI Genome downloader4 versions - Latest release: about 1 year ago - 26 downloads last month - 0 stars on GitHub - 1 maintainer
combined-gene-caller 1.0.4
Combined gene caller for MGnify pipeline, to combine predictions from FragGeneScan and Prodigal2 versions - Latest release: 9 months ago - 25 downloads last month - 0 stars on GitHub - 2 maintainers
sequencelib 2.20.0
Read, write, and analyze biological sequences32 versions - Latest release: 5 months ago - 4 dependent packages - 1 dependent repositories - 318 downloads last month - 0 stars on GitHub - 1 maintainer
isheatmap 1.0.9
heatmap of insertion sequences in a given genome2 versions - Latest release: 5 months ago - 13 downloads last month - 0 stars on GitHub - 1 maintainer
ambio 0.5.2
A lightweight Bioinformatics library23 versions - Latest release: about 3 years ago - 169 downloads last month - 0 stars on GitHub - 1 maintainer
sumt 3.8.3
Computes consensus trees and other phylogenetic tree summaries52 versions - Latest release: 28 days ago - 1 dependent repositories - 130 downloads last month - 0 stars on GitHub - 1 maintainer
scidmg 1.0.0
Consolidates differentially methylated regions and differentially methylated cytosines at the gen...1 version - Latest release: over 3 years ago - 1 dependent repositories - 22 downloads last month - 0 stars on GitHub - 1 maintainer
biopartitioner 0.1.14
A bioinformatics dataset partitioner13 versions - Latest release: almost 4 years ago - 1 dependent repositories - 49 downloads last month - 0 stars on GitHub - 1 maintainer
pyseacr 0.3
Sparse Enrichment Analysis for CUT&RUN1 version - Latest release: about 1 month ago - 0 stars on GitHub - 1 maintainer
profasta 0.0.5
A Python library for working with protein containing FASTA files.5 versions - Latest release: about 1 month ago - 107 downloads last month - 0 stars on GitHub - 1 maintainer
sccore
Single cell core functions1 version - 0 stars on GitHub
loco-hd 0.1.4
Implementation of the LoCoHD metric for quantitative protein structure and substructure comparison4 versions - Latest release: 3 months ago - 52 downloads last month - 0 stars on GitHub - 1 maintainer
ukbsearch 0.2.2
5 versions - Latest release: about 2 years ago - 1 dependent repositories - 45 downloads last month - 0 stars on GitHub - 1 maintainermotifdata 0.1.2
Motif representation and analysis toolkit4 versions - Latest release: 10 months ago - 1 dependent package - 36 downloads last month - 0 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 - 810 downloads last month - 0 stars on GitHub - 1 maintainer
raisin.box 1.4
A package used in the Raisin web application2 versions - Latest release: over 11 years ago - 2 dependent repositories - 8 downloads last month - 0 stars on GitHub - 1 maintainer
pyselection 0.1.0
A Python wrapper for Codeml selection analysis1 version - Latest release: over 9 years ago - 1 dependent repositories - 19 downloads last month - 0 stars on GitHub - 1 maintainer
nanoseq 0.1
A Python package for nanopore sequence alignment and primer design1 version - Latest release: 5 months ago - 11 downloads last month - 0 stars on GitHub - 1 maintainer
mpg 0.2.1
MPG: Markov Process Generator of DNA sequences2 versions - Latest release: about 7 years ago - 3 dependent repositories - 31 downloads last month - 0 stars on GitHub - 1 maintainer
eclip-peak 1.0.20
Pipeline for using IDR to identify a set of reproducible peaks given eClIP dataset with two or th...17 versions - Latest release: over 2 years ago - 1 dependent repositories - 119 downloads last month - 0 stars on GitHub - 1 maintainer
tacape 0.0.6
TACaPe: Transformed-based Anti-Cancer Peptide Classification and Generation5 versions - Latest release: 10 months ago - 19 downloads last month - 0 stars on GitHub - 1 maintainer
treedist 1.0.1
Computes measures of (dis)similarity between phylogenetic trees. Provides summaries of shared and...2 versions - Latest release: over 1 year ago - 1 dependent repositories - 24 downloads last month - 0 stars on GitHub - 1 maintainer
vrs-anvil-toolkit 0.0.1
Commons utilities1 version - Latest release: about 1 month ago - 13 downloads last month - 0 stars on GitHub - 1 maintainer
gdc-readgroups 0.4
From a BAM, convert each readgroup to a json/tsv object needed to create a GDC Read Group node.1 version - Latest release: about 5 years ago - 1 dependent repositories - 20 downloads last month - 0 stars on GitHub - 1 maintainer
pycytodata 0.1.2
An Elegant Data Analysis Tool for CyTOF4 versions - Latest release: 9 months ago - 1 dependent package - 1 dependent repositories - 41 downloads last month - 0 stars on GitHub - 1 maintainer
compath-hgnc 0.0.2
A package that wraps PyHGNC to perform mappings between different gene identifiers2 versions - Latest release: almost 6 years ago - 23 downloads last month - 0 stars on GitHub - 2 maintainers
ahab-lib 1.0.1
Python CLI library for interacting with ahab cloud API and Kubernetes systems.1 version - Latest release: 22 days ago - 148 downloads last month - 0 stars on GitHub - 1 maintainer
palmiche 0.0.0a4
A python package for automation of MD simulations1 version - Latest release: over 1 year ago - 12 downloads last month - 0 stars on GitHub - 1 maintainer
bioino 0.0.2
Lightweight IO and conversion for bioinformatics file formats.4 versions - Latest release: 3 months ago - 1 dependent package - 139 downloads last month - 0 stars on GitHub - 1 maintainer
metamist 6.10.2
Python API for interacting with the Sample API system25 versions - Latest release: 14 days ago - 1 dependent repositories - 1.66 thousand downloads last month - 0 stars on GitHub - 1 maintainer
azulejo 0.10.1
tile phylogenetic space with subtrees26 versions - Latest release: over 3 years ago - 1 dependent repositories - 237 downloads last month - 0 stars on GitHub - 1 maintainer
readgroup_json_db 0.27
read readgroup data as json and store in sqlitedb25 versions - Latest release: over 6 years ago - 2 dependent repositories - 95 downloads last month - 0 stars on GitHub - 1 maintainer
mutalyzer-hgvs-parser 0.3.5
Mutalyzer HGVS variant description parser.17 versions - Latest release: 9 months ago - 2 dependent packages - 1 dependent repositories - 344 downloads last month - 0 stars on GitHub - 1 maintainer
complexconstructor 0.1.6
Generate macrocomplexes superimposing paired interacting elements.4 versions - Latest release: about 4 years ago - 1 dependent repositories - 19 downloads last month - 0 stars on GitHub - 1 maintainer
loupetool 0.1.20
An integrate python package version of LoupeRunner19 versions - Latest release: over 1 year ago - 119 downloads last month - 0 stars on GitHub - 1 maintainer
debio 0.1.1
A community-curated, decentralized biomedical ontology.5 versions - Latest release: over 1 year ago - 36 downloads last month - 0 stars on GitHub - 1 maintainer
biofrost 0.1.0
The magic bifrost bridge of bioinformatic1 version - Latest release: almost 2 years ago - 19 downloads last month - 0 stars on GitHub - 1 maintainer
readfish-tools 0.0.1
A blazingly fast Python library for reading and summarising readfish output1 version - Latest release: 10 months ago - 231 downloads last month - 0 stars on GitHub - 1 maintainer
pdbprocessor 0.1.1
Simple PDB file processing tool3 versions - Latest release: over 2 years ago - 1 dependent repositories - 19 downloads last month - 0 stars on GitHub - 1 maintainer
dnres 0.2.0
Managing and sharing data and results of analysis.4 versions - Latest release: about 1 year ago - 1 dependent package - 1 dependent repositories - 50 downloads last month - 0 stars on GitHub - 1 maintainer
treetop 2024.5.13.dev1
TreeTOP1 version - Latest release: 8 days ago - 0 stars on GitHub - 1 maintainer
biotransistor 0.0.3 💰
bue`s public bioinformatics code base to explor biology.4 versions - Latest release: over 3 years ago - 38 downloads last month - 0 stars on GitLab.com - 1 maintainer
benchmark-4dn 0.5.23
Benchmark functions that returns total space, mem, cpu given input size and parameters for the CW...22 versions - Latest release: about 1 year ago - 2 dependent packages - 5 dependent repositories - 460 downloads last month - 0 stars on GitHub - 2 maintainers
pipeclip 2.0.10
PIPELINE FOR CLIP SEQ DATA11 versions - Latest release: about 2 years ago - 1 dependent repositories - 93 downloads last month - 0 stars on GitHub - 1 maintainer
venomseq 0.11a0
Python code for performing the data analysis in the VenomSeq workflow2 versions - Latest release: over 5 years ago - 1 dependent repositories - 16 downloads last month - 0 stars on GitHub - 1 maintainer
segment-multiwell-plate 0.4
segment_multiwell_plate: Automatically divide multi-well plate into separate images of each well4 versions - Latest release: 5 months ago - 19 downloads last month - 0 stars on GitHub - 1 maintainer
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