BIMSB bioinformatics platform / Akalin Lab

janggu

Deep learning infrastructure for genomics

compgen2021

intro2UnixandSGE

resource for unix and SGE beginners

pigx

Pipelines in genomics

pigx_sars-cov-2

PiGx SARS-CoV-2 wastewater sequencing pipeline

ciRcus

An R package for annotation of circular RNAs

deconvR

The deconvR is an R package designed for analyzing deconvolution of the bulk sample(s) using an atlas of reference omic signature profiles and a user-selected model.

pigx_scrnaseq

Pipeline for analysis of Dropseq single cell data

pigx_bsseq

bisulfite sequencing pipeline from fastq to methylation reports

projectTemplate

scmaui

ikarus---auxiliary

scbrowse

An interactive browser for single-cell ATAC-seq data

scregseg

Single-cell regulatory landscape segmentation

slimR

Short Linear Motif (SLiM) Analysis in the context of human diseases

guix.install

Install (and import) R packages with Guix from within your R session

pigx_docs

Documentation for PiGx

casled

cas13 + LEDs

froehlich_uyar_et_al_2020

multiomics_vs_panelseq

The repo of the "Multi-omics alleviates the limitations of panel-sequencing for cancer drug response prediction" manuscript

MyoExplorer

Companion code for: Kim et. al., Single-nucleus transcriptomics reveals functional compartmentalization in syncytial skeletal muscle cells

sudo

Mattermost bot

deep-seq-workflow

Deep Seq experiments backup workflow

compgen

compgen2020

compgen2021Capstone

Ewyler_SARS-CoV

flairExploreR

Muthel_et_al_lin53_2019

Reproduce bioinformatics analysis for the manuscript: Muthel et al, 2019.

PhenoGraph

Subpopulation detection in high-dimensional single-cell data