sequana

sequana

Sequana: a set of Snakemake NGS pipelines

rnaseq

RNA-seq, QC and differential analysis pipeline

mapper

Pipeline to map a set of FastQ files

sequanix

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

demultiplex

Sequana demultiplexing pipeline

fastqc

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

MergeGI

MergeGI provides a single command line to merge and select barcoded raw data from MGI sequencing runs into a set of FastQ files ready for subsequent bioinformatics analysis.

webapp_samplesheet

test st

lora

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

multicov

Snakemake pipeline wrapping sequana_coverage to analyse several samples at the same time

sequana_pipetools

A set of tools to help building or using sequana pipelines

bioconvert

convert files from one format to another using bioconvert

depletion

Deplete Fastq files from human or other content

laa

Pacbio amplicon, sequana, phylogeny, variant

nanomerge

Pipeline utility to perform merge of barcoded nanopore runs

pacbio_qc

QC on pacbio data

denovo

Denovo Assembly from FASTQ files

circlator

A tool to circularize genome assemblies

downsampling

down sample NGS data

GNFish

Suite of Python programs for Gene extraction and Phylogentic Inference

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

resources

Set of data and resources

revcomp

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

ribofinder

Workflow to find ribosomal feature in set of FastQ files

sequana-wrappers

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

sequana.github.io

resource for the website

sequana_pipeline_template

a cookiecutter sequana pipeline template

variant_calling

versionix

webapp_rnadiff