Pinned Repositories
demultiplex
Sequana demultiplexing pipeline
fastqc
sequana pipeline to perform parallel fastqc and summarize results with multiqc plot
lora
Run assembler (Canu, flye, hifiasm) on a set of long read files
mapper
Pipeline to map a set of FastQ files
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.
multicov
Snakemake pipeline wrapping sequana_coverage to analyse several samples at the same time
rnaseq
RNA-seq, QC and differential analysis pipeline
sequana
Sequana: a set of Snakemake NGS pipelines
sequanix
Sequanix is a graphical user interface (GUI) that can be used to run Snakemake workflows.
webapp_samplesheet
test st
sequana's Repositories
sequana/sequana
Sequana: a set of Snakemake NGS pipelines
sequana/rnaseq
RNA-seq, QC and differential analysis pipeline
sequana/mapper
Pipeline to map a set of FastQ files
sequana/sequanix
Sequanix is a graphical user interface (GUI) that can be used to run Snakemake workflows.
sequana/demultiplex
Sequana demultiplexing pipeline
sequana/fastqc
sequana pipeline to perform parallel fastqc and summarize results with multiqc plot
sequana/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.
sequana/webapp_samplesheet
test st
sequana/lora
Run assembler (Canu, flye, hifiasm) on a set of long read files
sequana/multicov
Snakemake pipeline wrapping sequana_coverage to analyse several samples at the same time
sequana/sequana_pipetools
A set of tools to help building or using sequana pipelines
sequana/bioconvert
convert files from one format to another using bioconvert
sequana/depletion
Deplete Fastq files from human or other content
sequana/laa
Pacbio amplicon, sequana, phylogeny, variant
sequana/nanomerge
Pipeline utility to perform merge of barcoded nanopore runs
sequana/pacbio_qc
QC on pacbio data
sequana/denovo
Denovo Assembly from FASTQ files
sequana/circlator
A tool to circularize genome assemblies
sequana/downsampling
down sample NGS data
sequana/GNFish
Suite of Python programs for Gene extraction and Phylogentic Inference
sequana/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
sequana/resources
Set of data and resources
sequana/revcomp
A simple utility to convert a bunch of input fastq files into their reverse complement
sequana/ribofinder
Workflow to find ribosomal feature in set of FastQ files
sequana/sequana-wrappers
The Sequana Wrapper Repository is a collection of reusable wrappers used in Sequana Pipelines.
sequana/sequana.github.io
resource for the website
sequana/sequana_pipeline_template
a cookiecutter sequana pipeline template
sequana/variant_calling
sequana/versionix
sequana/webapp_rnadiff