Ecosyste.ms: Packages
An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.
pypi.org "NGS" keyword
bio-aid 0.3.1
Genetic Analysis Tools22 versions - Latest release: 9 months ago - 38 downloads last month - 1 maintainer
assnake-core-preprocessing 0.5.2
Reads preprocessing module for assnake2 versions - Latest release: about 4 years ago - 1 dependent repositories - 14 downloads last month - 0 stars on GitHub - 1 maintainer
sequdas-qc 1.0.1
Sequence Upload and Data Archiving System2 versions - Latest release: over 4 years ago - 1 dependent repositories - 11 downloads last month - 0 stars on GitHub - 1 maintainer
Top 2.0% on pypi.org
37 versions - Latest release: 24 days ago - 7 dependent packages - 74 dependent repositories - 17 thousand downloads last month - 1,162 stars on GitHub - 1 maintainer
multiqc 1.22.1
Create aggregate bioinformatics analysis reports across many samples and tools37 versions - Latest release: 24 days ago - 7 dependent packages - 74 dependent repositories - 17 thousand downloads last month - 1,162 stars on GitHub - 1 maintainer
massgenotyping 0.2.2
Python package for microsatellite genotyping from amplicon sequencing data5 versions - Latest release: 5 months ago - 1 dependent repositories - 40 downloads last month - 7 stars on GitHub - 1 maintainer
smallgenomeutilities 0.4.0
A collection of scripts that are useful for dealing with viral RNA NGS data.6 versions - Latest release: 10 months ago - 1 dependent repositories - 139 downloads last month - 10 stars on GitHub - 3 maintainers
freebarcodes 3.1.0
FREE Divergence Error-Correcting DNA Barcodes7 versions - Latest release: over 1 year ago - 1 dependent repositories - 24 downloads last month - 21 stars on GitHub - 1 maintainer
sequana-revcomp 1.1.0
reverse complement a set of FastQ files8 versions - Latest release: 6 months ago - 1 dependent repositories - 14 downloads last month - 0 stars on GitHub - 1 maintainer
vfind 0.1.0
A simple variant finder for NGS data2 versions - Latest release: about 2 months ago - 84 downloads last month - 1 stars on GitHub - 1 maintainer
biosniff 1.0.0
A sniffer for biological data formats5 versions - Latest release: over 1 year ago - 2 dependent repositories - 118 downloads last month - 3 stars on GitHub - 1 maintainer
pysalsa 0.1.0
convert between bioinformatics formats1 version - Latest release: about 2 years ago - 1 dependent repositories - 8 downloads last month - 0 stars on GitHub - 1 maintainer
flipbook 1.0.1
Starts a simple image server that lets you quickly flip through image files from a local director...21 versions - Latest release: 5 months ago - 1 dependent repositories - 251 downloads last month - 19 stars on GitHub - 1 maintainer
reviewer2 0.9.31
Starts a simple image server that lets you quickly flip through image files from a local director...24 versions - Latest release: almost 3 years ago - 1 dependent repositories - 64 downloads last month - 18 stars on GitHub - 1 maintainer
Top 9.3% on pypi.org
2 versions - Latest release: about 5 years ago - 2 dependent repositories - 309 downloads last month - 1 maintainer
sequenza-utils 3.0.0
Analysis of cancer sequencing samples, utilities for the sequenza R package2 versions - Latest release: about 5 years ago - 2 dependent repositories - 309 downloads last month - 1 maintainer
de-toolkit 0.9.12
Suite of tools for working with count data29 versions - Latest release: over 4 years ago - 1 dependent repositories - 169 downloads last month - 1 maintainer
jupyterngsplugin 0.0.13a3
Jupyter notebook plugin for Bioinformatics NGS data analysis9 versions - Latest release: over 4 years ago - 2 dependent repositories - 41 downloads last month - 0 stars on GitLab.com - 1 maintainer
s-rna-tools 0.0.3
Tools for handling Small RNA sequences.3 versions - Latest release: over 1 year ago - 15 downloads last month - 0 stars on GitHub - 1 maintainer
samsift 0.2.5
SAMsift - sift your alignments6 versions - Latest release: over 6 years ago - 1 dependent repositories - 55 downloads last month - 21 stars on GitHub - 1 maintainer
iridauploader 0.9.2
IRIDA uploader: upload NGS data to IRIDA system16 versions - Latest release: about 1 year ago - 1 dependent repositories - 52 downloads last month - 8 stars on GitHub - 2 maintainers
iannotatesv 1.2.1
The module helps to annotate structural variants called using NGS on human.2 versions - Latest release: over 3 years ago - 1 dependent repositories - 13 downloads last month - 16 stars on GitHub - 1 maintainer
goenrichment 1.0.3
GO enrichment analysis from a list of gene names using a precomputed database10 versions - Latest release: over 2 years ago - 3 dependent repositories - 47 downloads last month - 0 stars on GitLab.com - 1 maintainer
vcftoolz 1.2.3
Tools for working with Variant Call Format files.7 versions - Latest release: about 1 year ago - 1 dependent repositories - 125 downloads last month - 8 stars on GitHub - 2 maintainers
prophyle 0.1.0
ProPhyle metagenomic classifier54 versions - Latest release: about 7 years ago - 1 dependent repositories - 233 downloads last month - 31 stars on GitHub - 1 maintainer
fastcontext 2022.8.30
A tool for identification of adapters and other sequence patterns in the next generation sequenci...3 versions - Latest release: almost 2 years ago - 3 downloads last month - 2 stars on GitHub - 2 maintainers
geo-upload-tool 1.0.8
CLI tool for preparing data submission to Gene Expression Omnibus9 versions - Latest release: almost 3 years ago - 1 dependent repositories - 65 downloads last month - 1 maintainer
mvirs 1.1.1
mVIRs: Localisation of inducible prophages using NGS data1 version - Latest release: about 2 years ago - 1 dependent repositories - 10 downloads last month - 12 stars on GitHub - 1 maintainer
metatrim 1.0.4
Trim reads from metabarcoding libraries5 versions - Latest release: almost 2 years ago - 16 downloads last month - 1 maintainer
fdstools 2.0.4
Forensic DNA Sequencing Tools14 versions - Latest release: over 1 year ago - 2 dependent repositories - 610 downloads last month - 5 stars on GitHub - 1 maintainer
sequana-downsampling 0.9.0
downsample NGS data sets5 versions - Latest release: almost 2 years ago - 1 dependent repositories - 21 downloads last month - 0 stars on GitHub - 1 maintainer
seqtables 0.11
Package for efficient analysis of next generation sequencing amplicon data using numpy and datafr...2 versions - Latest release: over 4 years ago - 1 dependent repositories - 10 downloads last month - 5 stars on GitHub - 1 maintainer
freediv10xcellbcs 0.0a1
FREE divergence-based decoding of 10X cell barcodes1 version - Latest release: over 1 year ago - 7 downloads last month - 0 stars on GitHub - 1 maintainer
hydra-genetics 2.0.0
Helper tools for use with hydra-genetics pipelines.62 versions - Latest release: about 2 months ago - 23 dependent repositories - 973 downloads last month - 3 stars on GitHub - 1 maintainer
gostrat 0.0.8
Tool to stratify GO terms based on first significant parent8 versions - Latest release: almost 4 years ago - 1 dependent repositories - 33 downloads last month - 1 maintainer
strnaming 1.2.0
STRNaming STR Sequence Nomenclature8 versions - Latest release: 5 months ago - 1 dependent package - 1 dependent repositories - 179 downloads last month - 1 stars on GitHub - 1 maintainer
anacore 3.1.0
Libraries for managing standard file formats and objects from NGS.11 versions - Latest release: 3 months ago - 1 dependent repositories - 42 downloads last month - 4 stars on GitHub - 1 maintainer
sequana-bioconvert 1.1.0
description: convert NGS format from one to another using bioconvert5 versions - Latest release: 6 months ago - 1 dependent repositories - 22 downloads last month - 1 stars on GitHub - 1 maintainer
mirge3 0.1.4
Comprehensive analysis of small RNA sequencing Data14 versions - Latest release: over 1 year ago - 1 dependent repositories - 68 downloads last month - 26 stars on GitHub - 1 maintainer
pasio 1.1.2
Pasio is a tool for segmentation and denosing DNA coverage profiles coming from high-throughput s...4 versions - Latest release: over 4 years ago - 1 dependent repositories - 21 downloads last month - 1 stars on GitHub - 1 maintainer
ngs-analysis 0.0.6
Analyze deep sequencing of complex libraries6 versions - Latest release: 4 months ago - 17 downloads last month - 0 stars on GitHub - 1 maintainer
cutseq 0.0.34 💰
Automatically cut adapter / barcode / UMI from NGS data36 versions - Latest release: about 1 month ago - 1.26 thousand downloads last month - 3 stars on GitHub - 1 maintainer
crispr-cas9 0.3.4
script for indels counting in sequencing data6 versions - Latest release: almost 3 years ago - 1 dependent repositories - 20 downloads last month - 4 stars on GitHub - 1 maintainer
sequana-depletion 0.3.0
A pipeline to deplete reads from a given reference3 versions - Latest release: 6 months ago - 1 dependent repositories - 27 downloads last month - 1 stars on GitHub - 1 maintainer
sequana-multitax 0.12.1
A multi-sample and multi-databases taxonomic analysis using Kraken12 versions - Latest release: 6 months ago - 1 dependent repositories - 36 downloads last month - 1 maintainer
amulety
Python package to create embeddings of BCR amino acid sequences.1 version
solida 0.9.7
NGS pipelines bootstrapper23 versions - Latest release: over 3 years ago - 1 dependent repositories - 169 downloads last month - 4 stars on GitHub - 1 maintainer
multiqc-msk 1.11.dev0
Create aggregate bioinformatics analysis reports across many samples and tools1 version - Latest release: about 3 years ago - 1 dependent repositories - 13 downloads last month - 1,162 stars on GitHub - 1 maintainer
relecov-tools 0.0.5
Tools for managing and resolution of buisciii services.3 versions - Latest release: over 1 year ago - 2 dependent repositories - 17 downloads last month - 4 stars on GitHub - 1 maintainer
multiqc-jupyterlab-helper 1.12.1.dev0
Create aggregate bioinformatics analysis reports across many samples and tools2 versions - Latest release: over 2 years ago - 1 dependent repositories - 13 downloads last month - 1,162 stars on GitHub - 1 maintainer
bacpage 2024.3.8
An easy-to-use pipeline for the assembly and analysis of bacterial genomes3 versions - Latest release: 3 months ago - 20 downloads last month - 7 stars on GitHub - 1 maintainer
Top 4.3% on pypi.org
48 versions - Latest release: about 1 month ago - 1 dependent package - 4 dependent repositories - 9.6 thousand downloads last month - 217 stars on GitHub - 4 maintainers
nf-core 2.14.1
Helper tools for use with nf-core Nextflow pipelines.48 versions - Latest release: about 1 month ago - 1 dependent package - 4 dependent repositories - 9.6 thousand downloads last month - 217 stars on GitHub - 4 maintainers
custardpy 0.7.2
Hi-C analysis tools by Python351 versions - Latest release: 3 months ago - 105 downloads last month - 3 stars on GitHub - 1 maintainer
telomerehunter 1.1.0
Estimation of Telomere Content from WGS Data6 versions - Latest release: over 5 years ago - 2 dependent repositories - 91 downloads last month - 2 maintainers
megaqc 0.2.0
Collect and visualise data across multiple MultiQC runs2 versions - Latest release: almost 4 years ago - 1 dependent repositories - 33 downloads last month - 93 stars on GitHub - 1 maintainer
seqcluster 1.2.8
Small RNA-seq pipeline39 versions - Latest release: over 3 years ago - 3 dependent repositories - 143 downloads last month - 35 stars on GitHub - 1 maintainer
mirge-build 0.0.1
miRge-build: Building libraries of small RNA sequencing Data1 version - Latest release: over 3 years ago - 1 dependent repositories - 15 downloads last month - 2 stars on GitHub - 1 maintainer
counhto 1.1.0
Python package for generating and demultiplexing hash tag oligo count matrices from cellranger ou...2 versions - Latest release: about 1 year ago - 17 downloads last month - 0 stars on GitHub - 1 maintainer
pymasc 0.3.2
Python implementation to calc mappability-sensitive cross-correlation for fragment length estimat...12 versions - Latest release: over 4 years ago - 1 dependent repositories - 37 downloads last month - 2 stars on GitHub - 1 maintainer
sequana-pacbio-qc 1.0.1
QC on various type of pacbio data5 versions - Latest release: 11 months ago - 1 dependent repositories - 29 downloads last month - 140 stars on GitHub - 1 maintainer
bioconvert 1.1.1
convert between bioinformatics formats32 versions - Latest release: 11 months ago - 1 dependent package - 1 dependent repositories - 286 downloads last month - 351 stars on GitHub - 1 maintainer
Top 5.1% on pypi.org
97 versions - Latest release: 3 months ago - 12 dependent packages - 14 dependent repositories - 1 thousand downloads last month - 0 stars on GitHub - 1 maintainer
sequana 0.16.11
A set of standalone application and pipelines dedicated to NGS analysis97 versions - Latest release: 3 months ago - 12 dependent packages - 14 dependent repositories - 1 thousand downloads last month - 0 stars on GitHub - 1 maintainer
multiqc-sgr 1.21.4
Create aggregate bioinformatics analysis reports across many samples and tools8 versions - Latest release: 27 days ago - 258 downloads last month - 0 stars on GitHub - 1 maintainer
sequana-variant-calling 1.2.0
A multi-sample variant calling pipeline24 versions - Latest release: 4 months ago - 1 dependent repositories - 131 downloads last month - 0 stars on GitHub - 1 maintainer
sequana-sphinxext 1.0.0
A set of sphinx extension for Sequana pipelines, wrappers and rules3 versions - Latest release: over 2 years ago - 1 dependent repositories - 29 downloads last month - 0 stars on GitHub - 1 maintainer
sequana-quality-control 0.10.0
A quality control pipeline for illumina data set. This pipeline removes contaminants (e.g. Phix),...5 versions - Latest release: about 2 years ago - 1 dependent repositories - 34 downloads last month - 0 stars on GitHub - 1 maintainer
sequana-mapper 1.2.1
A multi-sample mapper to map reads onto a reference24 versions - Latest release: 4 months ago - 1 dependent repositories - 113 downloads last month - 5 stars on GitHub - 1 maintainer
sequana-fastqc 1.8.2
A multi-sample fastqc pipeline from Sequana project35 versions - Latest release: 4 months ago - 1 dependent repositories - 275 downloads last month - 3 stars on GitHub - 1 maintainer
sequana-denovo 0.10.0
Multi-sample denovo assembly of FastQ sequences (short read)8 versions - Latest release: 6 months ago - 1 dependent repositories - 70 downloads last month - 3 stars on GitHub - 1 maintainer
assnake 0.8.9
System for metagenomics data analysis8 versions - Latest release: about 4 years ago - 1 dependent repositories - 51 downloads last month - 11 stars on GitHub - 1 maintainer
varbscore 1.0.3
A python package to calculate varBscore using vcf input4 versions - Latest release: about 3 years ago - 1 dependent repositories - 19 downloads last month - 0 stars on GitHub - 1 maintainer
pycircos 1.0.2
This Tools is Design for NGS Circos Plot with using Python.2 versions - Latest release: over 4 years ago - 1 dependent repositories - 180 downloads last month - 5 stars on GitHub - 1 maintainer
papolarity 1.1.2
Papolarity is a tool to analyze polarity of transcriptomic alignments such as Ribo-seq and RNA-seq.21 versions - Latest release: over 2 years ago - 1 dependent repositories - 32 downloads last month - 1 stars on GitHub - 1 maintainer
irida-uploader-cl 0.2
IRIDA uploader: upload NGS data to IRIDA system2 versions - Latest release: over 4 years ago - 1 dependent repositories - 23 downloads last month - 0 stars on GitHub - 1 maintainer
gmarrayfilter 1.0.3
A python package to filter SNP array data4 versions - Latest release: over 2 years ago - 1 dependent repositories - 18 downloads last month - 1 maintainer
cirrus-ngs 1.0.0a1
Cloud-optimized primary analysis pipelines for RNA-seq, miRNA-seq, ChIP-seq, and variant calling ...1 version - Latest release: about 6 years ago - 1 dependent repositories - 21 downloads last month - 8 stars on GitHub - 1 maintainer
c3s 1.0.0
Python Modules for XXXXXXXX1 version - Latest release: over 6 years ago - 20 downloads last month - 1 maintainer
slamdunk 0.4.3
SLAMdunk suite for analyzing SLAM-seq data12 versions - Latest release: about 4 years ago - 1 dependent repositories - 89 downloads last month - 36 stars on GitHub - 1 maintainer
Related Keywords
bioinformatics
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sequencing
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snakemake
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biology
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next generation sequencing
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bioconda
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IRIDA
2
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DATA
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ILLUMINA
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STRs
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METAGENOMIC
2
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2
machine learning
2
miRNA
1
snoRNA
1
mirna
1
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1
smallrna
1
trna
1
BCR
1
miRge-build
1
single cell sequencing
1
hashtag oligo counting
1
hashtag oligo demultiplexing
1
cellranger
1
ChIP-Seq
1
algorithm
1
bam
1
bigwig
1
chip-seq
1
cross-correlation
1
cython
1
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1
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1
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1
ngs-pipeline
1
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nf-core
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nextflow
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Hi-C analysis
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telomere
1
content
1