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Catalogue

Bioinformatics Toolbox

biobox v0.3.1

A toolbox of bioinformatics tools for working with biological data. Use these modules as standalone workflows or combine them into larger workflows.

Stable

Bioinformatics
Toolbox
Modules
Workflows

Bulk RNA-seq

rnaseq v0.3.0

A collection of workflows for the end-to-end processinging of bulk transcriptomics data.

Experimental

RNA
RNAseq

High throughput RNA-seq

htrnaseq v0.7.1

Workflows for demultiplexing and processing high-througput RNAseq data.

Stable

high-throughput
RNAseq
demultiplexing
bcl-confert
illumina
bases2fastq

Single Cell Multi-omics

openpipeline 2.1.2

Collection of single cell analysis pipelines for reproducible and large-scale single-cell processing for transcriptomics and multimodal data.

Stable

Illumina
Cellranger Multi
BD Rhapsody
10x Genomics
foundation models
multi-omics
VDJ
ATACseq
CITEseq
dropseq
RNA
protein
batch correction
cell type annotation

Spatial Omics

openpipeline_spatial pre-release

Coming soon: a collection of spatial transcriptomics single cell analysis pipelines.

Visium
CosMx

Collaborate Accelerate Succeed

Empower your organization with secure, scalable workflow solutions that simplify development, ensure compliance, and drive innovation.

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