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44 projects

bioservices

Last released

Access to Biological Web Services from Python

pysalsa

Last released

convert between bioinformatics formats

bioconvert

Last released

convert between bioinformatics formats

biosniff

Last released

A sniffer for biological data formats

sequana-bioconvert

Last released

description: convert NGS format from one to another using bioconvert

sequana-mapper

Last released

A simple mapper to map reads onto a reference. This is useful for quick QCs and also secondary analysis

sequana-pipetools

Last released

A set of tools to help building or using Sequana pipelines

sequana-depletion

Last released

Deplete or select reads from Fastq files

sequana

Last released

A set of standalone application and pipelines dedicated to NGS (new generation sequencing) analysis

spectrum

Last released

Spectrum Analysis Tools

sequana-quality-control

Last released

A quality control pipeline for illumina data set. This pipeline removes contaminants (e.g. Phix), performs fastqc, adapter cleaning and trimming and checks for contaminants

sequana-variant-calling

Last released

A variant calling pipeline to analyse sequencing Illumina data

sequana-rnaseq

Last released

A RNAseq pipeline from raw reads to feature counts

sequana-fastqc

Last released

A fastqc pipeline from sequana project.

sequana-ribofinder

Last released

NGS, ribosomal, rRNA, snakemake, sequana

sequana-demultiplex

Last released

Pipeline that runs bcl2fastq and creates additional plots within a Snakemake workflow

damona

Last released

A set of NGS singularity recipes, built for you and easily downlable

sequana-laa

Last released

Long read amplicon analysis

sequana-pacbio-qc

Last released

QC on various type of pacbio data

sequana-sphinxext

Last released

A set of sphinx extension for Sequana pipelines, wrappers and rules

colormap

Last released

Utilities to ease manipulation of matplotlib colormaps and color codecs (e.g., hex2rgb)

easydev

Last released

Common utilities to ease the development of Python packages

biokit

Last released

Set of tools related to Bioinformatics (e.g., visualisation)

reports

Last released

Quickly create HTML reports using a set of JINJA templates

fitter

Last released

A tool to fit data to many distributions and best one(s)

MergeGI

Last released

Merge MGI fastq

sequana-multitax

Last released

taxonomy, sequana, kraken, snakemake

sequana-denovo

Last released

Denovo Assembly from FASTQ files

sequana-merge-flowcells

Last released

Merge FastQ from different projects (flowcells) into single project

sequana-coverage

Last released

Parallelise version of sequana_coverage standalone application.

sequana-downsampling

Last released

downsample NGS data sets

sequana-revcomp

Last released

reverse complement a set of FastQ files

gdsctools

Last released

Set of tools and pipelines to analyse GDSC data (cancerrxgene.org)

dreamtools

Last released

Scoring functions for the DREAM / SAGE challenges

pypiview

Last released

Utility to visualise the number of downloads of package(s) available on Pypi website

cno

Last released

CNO (Cell Net Optimiser): Manipulate, Visualise and Optimise Biological Networks to Perturbation Data.

msdas

Last released

Put a short description here

cellnopt.core

Last released

Functions to manipulate networks and data related to signalling pathways.

browse

Last released

Open a web page in a browser, as simple as that...

cellnopt.data

Last released

data and model repository for http://www.cellnopt.org project

pymeigo

Last released

Python wrapper of MEIGOR, a R optimisation package (http://www.iim.csic.es/~gingproc/meigo.html).

cellnopt.admin

Last released

Administrative tools used to manage cellnopt software (python and R)

rtools

Last released

utilities to ease manipulation of R packages using rpy2.

cellnopt.wrapper

Last released

CellNOpt R packages wrapper and utilities

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