cokelaer

bioconvert

Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.

bioservices

Access to Biological Web Services from Python.

biosniff

A Sniffer for Biological formats

colormap

Utilities to visualise and create matplotlib colormaps and various color codecs

damona

singularity environment manager (application to NGS and bioinformatics)

easydev

Common utilities to ease the development of Python packages

fitter

Fit data to many distributions

reports

Utilities to ease the creation of HTML/PDF reports using Python language

spectrum

Spectral Analysis in Python

sequana

Sequana: a set of Snakemake NGS pipelines

cokelaer/fitter

Fit data to many distributions

cokelaer/spectrum

Spectral Analysis in Python

cokelaer/bioservices

Access to Biological Web Services from Python.

cokelaer/colormap

Utilities to visualise and create matplotlib colormaps and various color codecs

cokelaer/easydev

Common utilities to ease the development of Python packages

cokelaer/damona

singularity environment manager (application to NGS and bioinformatics)

cokelaer/demultiplex

Sequana demultiplexing pipeline

cokelaer/bioconvert

Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.

cokelaer/denovo

Denovo Assembly from FASTQ files

cokelaer/depletion

Deplete Fastq files from human or other content

cokelaer/downsampling

down sample NGS data

cokelaer/fastqc

sequana pipeline to perform parallel fastqc and summarize results with multiqc plot

cokelaer/laa

Pacbio amplicon, sequana, phylogeny, variant

cokelaer/lite

cokelaer/lora

Run assembler (Canu, flye, hifiasm) on a set of long read files

cokelaer/mapper

Pipeline to map a set of FastQ files

cokelaer/nanomerge

Pipeline utility to perform merge of barcoded nanopore runs

cokelaer/pacbio_qc

QC on pacbio data

cokelaer/pyodide

Pyodide is a Python distribution for the browser and Node.js based on WebAssembly

cokelaer/quality_control

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

cokelaer/revcomp

A simple utility to convert a bunch of input fastq files into their reverse complement

cokelaer/ribofinder

Workflow to find ribosomal feature in set of FastQ files

cokelaer/rnaseq

RNA-seq, QC and differential analysis pipeline

cokelaer/sequana

Sequana: a set of Snakemake NGS pipelines

cokelaer/sequana-wrappers

The Sequana Wrapper Repository is a collection of reusable wrappers used in Sequana Pipelines.

cokelaer/sequana_bioconvert

convert files from one format to another using bioconvert

cokelaer/sequana_pipetools

A set of tools to help building or using sequana pipelines

cokelaer/sequanix

Sequanix is a graphical user interface (GUI) that can be used to run Snakemake workflows.

cokelaer/variant_calling

cokelaer/versionix