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Stories - 15
Constellab Contest Guidelines
The Constellab Contest isn't just a competition; it's a movement towards open source innovation and collective knowledge in the life sciences. Are you passionate about pushing the boundaries of knowle...
Single-cell RNA-Seq Analysis Pipeline
In 2023, Batignes et al. published an article intitled "Enhanced Inflammatory Signaling Driven by Metabolic Switch in Aicardi-Goutières Syndrome". Aicardi-Goutières syndrome (AGS) is a genetic ...
PyDESeq2 for differential expression analysis (DEA) with bulk RNA-seq data
PyDESeq2, a Python implementation of the DESeq2 method originally developed in R (click here) , is a versatile tool for conducting differential expressi...
16s data analysis pipeline
In 2019, Pietrucci et al. published a study on gut microbiota dysbiosis in Parkinson's patients, analyzing 152 fecal samples from 80 patients and 72 healthy controls. The authors conducted 16S ...
Live tasks - 4
Motif Search in DNA/Protein Sequences
The following livetask is designed to identify specific motifs within a set of DNA or Protein sequences provided in a FASTA format file.
PyDESeq2 for differential expression analysis
This livetask utilizes the PyDESeq2 library for differential expression analysis of gene expression data. It takes as input a count table and metadata file
Convert gene names to gene IDs
This livetask streamlines the process of converting gene names to gene IDs by leveraging the MyGeneInfo API and pandas library in Python. It takes a list of gene names stored in a csv format as input.
Convert gene IDs to gene names
This livetask streamlines the process of converting gene IDs to gene names. It takes a list of gene IDs in a csv format as input.
Bricks - 3
gws_scomix
This brick allows users to analyse scRNAseq datasets
gws_ubiome
uBiome provides core features for 16S rRNA short-read sequencing analysis
gws_omix
OmiX is a suite of tools to perform classic omics data analysis.