fmicompbio

monaLisa

binned motif enrichment analysis and visualisation

adv_scrnaseq_2020

Material for lectures and exercises of the SIB course "Advanced topics in single-cell transcriptomics" (May 2020)

adv_singlecell_2022

Material for the "Advanced topics in single-cell analysis" course (2022 edition)

eisaR

Exon-Intron Split Analysis (EISA) in R

ez_zarr

GIve easy, high-level access to ome-zarr fileset

mutscan

Software to process, statistically analyse and visualise deep mutational scanning data

swissknife

Handy code shared in the FMI CompBio group

einprot

Proteomics analysis workflows

SIB_scRNA-seq_Tutorial_2018

SIB course teaching concepts for single-cell RNA-seq analysis

QuasR

This package provides a framework for the quantification and analysis of Short Reads. It covers a complete workflow starting from raw sequence reads, over creation of alignments and quality control plots, to the quantification of genomic regions of interest.

Rhisat2

R wrapper around the hisat2 aligner.

fmicompbio.github.io

FMI CompBio's public GitHub repositories

orthos

Variance decomposition using conditional variational auto-encoders

sketchR

An R interface to the subsampling algorithms implemented in python

TabulaMurisSenisData

data from the TabulaMuris Senis project

PCA_intro2020

Rbowtie

This package provides an R wrapper around the popular bowtie short read aligner and around SpliceMap, a de novo splice junction discovery and alignment tool. The package is used by the QuasR bioconductor package. We recommend to use the QuasR package instead of using Rbowtie directly.

ezzarr

Thin wrapper around the ez_zarr python package.

fmicompbio.r-universe.dev

configure packages for https://r-universe.dev/

footprintR

Tools for working with single-molecule footprinting data

griph

Graph Inference of Population Heterogeneity.

intermediate_ggplot2

Tips and tricks for intermediate ggplot2 usage

mutscan_manuscript_2022

Code used in the mutscan manuscript (analysis of datasets using mutscan, Enrich2 and DimSum, comparison and visualization)

orthosData

Data package for `orthos` (https://github.com/fmicompbio/orthos)

Spombe_TFome

Link to rendered reports: