Ecosyste.ms: Packages
An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.
pypi.org "bioinformatics-pipeline" keyword
lorax 0.94.86
lorax -- speaks for the (phylogenetic) trees.76 versions - Latest release: over 5 years ago - 1 dependent repositories - 501 downloads last month - 1 stars on GitHub - 2 maintainers
Top 9.0% on pypi.org
130 versions - Latest release: 3 days ago - 1 dependent package - 4 dependent repositories - 1.89 thousand downloads last month - 35 stars on GitHub - 5 maintainers
hicstuff 3.2.3
General purpose stuff to generate and handle Hi-C data in its simplest form.130 versions - Latest release: 3 days ago - 1 dependent package - 4 dependent repositories - 1.89 thousand downloads last month - 35 stars on GitHub - 5 maintainers
phigaro 2.4.0
Phigaro is a scalable command-line tool for predicting phages and prophages.34 versions - Latest release: 4 months ago - 1 dependent repositories - 264 downloads last month - 46 stars on GitHub - 3 maintainers
open-cravat-multiuser 2.5.0
OpenCRAVAT Multiuser Addon10 versions - Latest release: 3 months ago - 1 dependent repositories - 65 downloads last month - 108 stars on GitHub - 1 maintainer
biowardrobe-cwl-workflows 1.0.20181213214400
Wrapped BioWardrobe's CWL files5 versions - Latest release: over 5 years ago - 1 dependent repositories - 37 downloads last month - 14 stars on GitHub - 1 maintainer
cxapit 1.0.17
A Python client for the Bacalha public API17 versions - Latest release: about 1 month ago - 92 downloads last month - 617 stars on GitHub - 1 maintainer
Top 8.0% on pypi.org
22 versions - Latest release: 4 months ago - 3 dependent packages - 1 dependent repositories - 774 downloads last month - 617 stars on GitHub - 1 maintainer
bacalhau-sdk 1.2.1
Compute over Data framework for public, transparent, and optionally verifiable computation using ...22 versions - Latest release: 4 months ago - 3 dependent packages - 1 dependent repositories - 774 downloads last month - 617 stars on GitHub - 1 maintainer
Top 7.4% on pypi.org
33 versions - Latest release: 2 months ago - 1 dependent package - 1 dependent repositories - 907 downloads last month - 617 stars on GitHub - 1 maintainer
bacalhau-apiclient 1.2.2
A Python client for the Bacalhau public API - https://github.com/bacalhau-project/bacalhau/tree/m...33 versions - Latest release: 2 months ago - 1 dependent package - 1 dependent repositories - 907 downloads last month - 617 stars on GitHub - 1 maintainer
rnalysis 3.12.0 💰
RNAlysis is an analysis software for RNA sequencing data. RNAlysis can help to filter, visualize,...39 versions - Latest release: 1 day ago - 1 dependent repositories - 620 downloads last month - 121 stars on GitHub - 1 maintainer
nphase 1.2.1
nPhase is a command line ploidy agnostic phasing pipeline and algorithm which phases samples of a...28 versions - Latest release: 5 months ago - 1 dependent repositories - 230 downloads last month - 39 stars on GitHub - 1 maintainer
Top 4.2% on pypi.org
38 versions - Latest release: 8 months ago - 5 dependent packages - 5 dependent repositories - 2.13 thousand downloads last month - 292 stars on GitHub - 1 maintainer
pysradb 2.2.0 💰
A Python package for interacting with SRAdb and downloading datasets from SRA/ENA/GEO38 versions - Latest release: 8 months ago - 5 dependent packages - 5 dependent repositories - 2.13 thousand downloads last month - 292 stars on GitHub - 1 maintainer
pycrispr 1.2.0
A package for CRISPR-Cas9 screen analysis3 versions - Latest release: 10 months ago - 24 downloads last month - 2 stars on GitHub - 1 maintainer
bacalhau-airflow 1.2.1
An Apache Airflow provider for Bacalhau.18 versions - Latest release: 4 months ago - 142 downloads last month - 605 stars on GitHub - 1 maintainer
tmerge 2.0.3
Merge transcriptome read-to-genome alignments into non-redundant transcript models.4 versions - Latest release: almost 4 years ago - 1 dependent repositories - 30 downloads last month - 0 stars on GitHub - 1 maintainer
stjudecloud-oliver 1.4.11
An opinionated Cromwell orchestration system27 versions - Latest release: over 1 year ago - 1 dependent repositories - 151 downloads last month - 40 stars on GitHub - 1 maintainer
seroba 1.0.0
SEROBA: Serotyping for illumina reads3 versions - Latest release: over 6 years ago - 1 dependent repositories - 11 downloads last month - 15 stars on GitHub - 1 maintainer
runjob 2.10.7
runjob is a program for managing a group of related jobs running on a compute cluster34 versions - Latest release: 5 months ago - 2 dependent packages - 1 dependent repositories - 182 downloads last month - 9 stars on GitHub - 1 maintainer
rna-count-salmon 1.9 removed
rna-count-salmon is a pipeline written with Snakemake that quantifies your RNA-Seq reads with Sa...1 version - Latest release: over 3 years ago - 1 dependent repositories - 12 downloads last month - 1 stars on GitHub - 1 maintainer
riboraptor 0.2.2
Python package to analyse ribosome profiling data2 versions - Latest release: about 6 years ago - 1 dependent repositories - 33 downloads last month - 13 stars on GitHub - 1 maintainer
reactomepy 0.68.9 removed 💰
Explore biomolecular pathways in Reactome from the command line1 version - Latest release: about 5 years ago - 1 dependent repositories - 6 downloads last month - 15 stars on GitHub - 1 maintainer
r2g 1.0.5
A homology-based, computationally lightweight pipeline for discovering genes in the absence of an...6 versions - Latest release: over 3 years ago - 1 dependent repositories - 59 downloads last month - 49 stars on GitHub - 1 maintainer
pyrpipe 0.0.5
pyrpipe6 versions - Latest release: over 3 years ago - 1 dependent repositories - 37 downloads last month - 76 stars on GitHub - 1 maintainer
plasmidpredictor 0.1.0
plasmidpredictor: predict which plasmid should be present from uncorrected long read data1 version - Latest release: over 5 years ago - 1 dependent repositories - 48 downloads last month - 37 stars on GitHub - 1 maintainer
pacmill 0.6.1
The `pacmill` python package is a bioinformatics pipeline that is developed to process microbial ...7 versions - Latest release: almost 3 years ago - 1 dependent repositories - 22 downloads last month - 1 stars on GitHub - 1 maintainer
novartis-pisces 0.1.5
PISCES: pipeline for rapid transcript quantitation, genetic fingerprinting, and quality control a...13 versions - Latest release: over 2 years ago - 1 dependent repositories - 44 downloads last month - 28 stars on GitHub - 1 maintainer
methylpy 1.4.7
Bisulfite sequencing data processing and differential methylation analysis50 versions - Latest release: 12 months ago - 128 downloads last month - 126 stars on GitHub - 1 maintainer
metage2metabo 1.6.1
Automatic reconstruction of draft metabolic networks with Pathway Tools and graph-based metabolic...35 versions - Latest release: about 1 month ago - 1 dependent repositories - 271 downloads last month - 44 stars on GitHub - 2 maintainers
loopercli 0.12.6
A pipeline submission engine that parses sample inputs and submits pipelines for each sample.8 versions - Latest release: about 4 years ago - 3 dependent repositories - 43 downloads last month - 19 stars on GitHub - 4 maintainers
looper 1.7.0
A pipeline submission engine that parses sample inputs and submits pipelines for each sample.18 versions - Latest release: 4 months ago - 5 dependent repositories - 332 downloads last month - 19 stars on GitHub - 3 maintainers
Top 9.9% on pypi.org
16 versions - Latest release: over 6 years ago - 5 dependent repositories - 87 downloads last month - 52 stars on GitHub - 1 maintainer
iva 1.0.9
Iterative Virus Assembler16 versions - Latest release: over 6 years ago - 5 dependent repositories - 87 downloads last month - 52 stars on GitHub - 1 maintainer
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 - 1 maintainer
fyrd 0.6.2b1
Submit functions and shell scripts to torque, slurm, or local machines3 versions - Latest release: about 6 years ago - 1 dependent repositories - 22 downloads last month - 21 stars on GitHub - 1 maintainer
discere 0.0.4
Protein Feature Extraction package for Machine Learning1 version - Latest release: over 4 years ago - 1 dependent repositories - 20 downloads last month - 16 stars on GitHub - 1 maintainer
deepchain-apps 0.1.12
Define a personnal app to deploy on DeepChain.bio30 versions - Latest release: about 2 years ago - 1 dependent repositories - 325 downloads last month - 25 stars on GitHub - 1 maintainer
Top 8.1% on pypi.org
33 versions - Latest release: over 6 years ago - 6 dependent repositories - 145 downloads last month - 212 stars on GitHub - 1 maintainer
circlator 1.5.5
circlator: a tool to circularise genome assemblies33 versions - Latest release: over 6 years ago - 6 dependent repositories - 145 downloads last month - 212 stars on GitHub - 1 maintainer
altanalyze 2.1.3
User Friendly Application for Comprehensive Transcriptome Analysis38 versions - Latest release: about 5 years ago - 257 downloads last month - 91 stars on GitHub - 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
Top 5.8% on pypi.org
25 versions - Latest release: 27 days ago - 1 dependent package - 11 dependent repositories - 18.6 thousand downloads last month - 45 stars on GitHub - 4 maintainers
piper 0.14.1
A lightweight python toolkit for gluing together restartable, robust command line pipelines25 versions - Latest release: 27 days ago - 1 dependent package - 11 dependent repositories - 18.6 thousand downloads last month - 45 stars on GitHub - 4 maintainers
gmql 0.1.1
Python Library for data analysis based on GMQL13 versions - Latest release: almost 5 years ago - 1 dependent repositories - 85 downloads last month - 11 stars on GitHub - 1 maintainer
ilus 2.0.0
ilus: A handy tools for generating WGS/WES analysis pipeline.14 versions - Latest release: 5 months ago - 1 dependent repositories - 66 downloads last month - 102 stars on GitHub - 1 maintainer
Top 7.1% on pypi.org
53 versions - Latest release: over 3 years ago - 7 dependent repositories - 285 downloads last month - 151 stars on GitHub - 1 maintainer
ariba 2.14.6
ARIBA: Antibiotic Resistance Identification By Assembly53 versions - Latest release: over 3 years ago - 7 dependent repositories - 285 downloads last month - 151 stars on GitHub - 1 maintainer
tiptoft 1.0.2
tiptoft: predict which plasmid should be present from uncorrected long read data6 versions - Latest release: over 4 years ago - 1 dependent repositories - 52 downloads last month - 37 stars on GitHub - 1 maintainer
albatradis 1.0.1
Comparitive transposon mutagenesis experiment analysis2 versions - Latest release: over 4 years ago - 1 dependent repositories - 23 downloads last month - 7 stars on GitHub - 1 maintainer
Related Keywords
bioinformatics
31
genomics
15
python
7
bioinformatics-tool
7
bioinformatics-analysis
7
sequencing
7
research
7
pathogen
7
infectious-diseases
7
global-health
7
next-generation-sequencing
6
rna-seq
4
ai-art
4
ai-data-collection
4
ai-pipeline
4
batch-processing
4
data-analysis
4
data-engineering
4
data-science
4
decentralized
4
decentralized-computing
4
distributed
4
gene-sequencing
4
insulators
4
iot
4
logging-framework
4
orchestration-framework
4
p2p
4
video-processing
4
workflow
3
ncbi-sra
3
transcriptomics
3
rnaseq
3
rna-seq-pipeline
3
python3
3
ngs
2
plasmidfinder
2
uncorrected
2
bacalhau
2
pipeline-submission-engine
2
genetics
2
pathway-analysis
2
salmon
2
rnaseq-pipeline
2
cluster
2
deep-learning
2
rna-seq-data
2
hpc
2
pipeline
2
kmer
2
epigenetics
2
long-reads
2
nanopore
2
oxford-nanopore
2
pacbio
2
plasmid
2
genomic-data-analysis
2
microRNAs
1
multiprocessing
1
job_management
1
library
1
python2
1
nome-seq-data
1
Functional genomics
1
Epigenetics
1
Calling DMRs
1
Differential methylation
1
Nome-seq data
1
metabolic-models
1
python3-library
1
slurm-cluster
1
feature
1
extraction
1
Bisulfite sequencing data
1
Ribonomics
1
Hyb
1
Hybrids
1
CLASH
1
calling-dmrs
1
differential-methylation
1
qCLASH
1
CLEAR-CLIP
1
dna-methylation
1
Chimeric e-CLIP
1
clash
1
hyb
1
qclash
1
functional-genomics
1
ribonomics
1
nome-seq
1
slurm
1
torque
1
protein
1
network-analysis
1
pagerank
1
scrna-seq-data
1
single-cell-splicing
1
splicing-quantification
1
splicing-visualization
1
fungal
1