Georgios Fotakis's repositories
alpine_workshop
basic rutine to build docker images from alpine base img
atlas_protocol
A computational protocol for atlas-level data integration and analysis as performed in Salcher et al. (2022).
CRC_atlas_velocyto
A nextflow pipeline to run velocyto on samples (CRC atlas project)
git_training
basic git routines for students
infercnvpy
Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.
NeoFuse
NeoFuse is a user-friendly pipeline for the prediction of fusion neoantigens from tumor RNA-seq data.
nextNEOpi
nextNEOpi: a comprehensive pipeline for computational neoantigen prediction
nextPyrad
Nextflow pipeline to extract features from imaging dataset using Pyradiomics
RNA-seq-QTL
Workflow for Integration of RNAseq and QTL Analyses in Collaborative Cross Mice
scirpy
A scanpy extension to analyse single-cell TCR and BCR data.
scrnaseq
A single-cell RNAseq pipeline for 10X genomics data