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janggu
Deep learning infrastructure for genomicscompgen2021
genomation
R package for genomic feature analysis and visualizationmaui
Multi-omics Autoencoder Integration: Deep learning-based heterogenous data analysis toolkitVoltRon
Spatial omic analysis toolbox for multi-resolution and multi-omic integration using image registrationikarus
Identifying tumor cells at the single-cell level using machine learningnetSmooth
netSmooth: A Network smoothing based method for Single Cell RNA-seq imputationintro2UnixandSGE
resource for unix and SGE beginnerspigx_rnaseq
Bulk RNA-seq Data Processing, Quality Control, and Downstream Analysis Pipelineflexynesis
A deep-learning based multi-modal data integration suite that aims to achieve synesis in a flexible mannerpigx
Pipelines in genomicspigx_sars-cov-2
PiGx SARS-CoV-2 wastewater sequencing pipelineguix-bimsb
Packages for GNU Guix that have not yet or will not be submitted upstream for various reasonsbavaria
Batch-adversarial variational auto-encoder (BAVARIA) for simultaneous dimensionality reduction and integration of single-cell ATAC-seq datasetsHOT-or-not-examining-the-basis-of-high-occupancy-target-regions
HOT regions papermergen
AI-Driven Code Generation, Explanation and Execution for Data Analysispigx_bsseq
bisulfite sequencing pipeline from fastq to methylation reportsdeconvR
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.ciRcus
An R package for annotation of circular RNAscompgen2018
teaching material for compgen2018 coursepigx_scrnaseq
Pipeline for analysis of Dropseq single cell dataguix-bimsb-nonfree
GNU Guix package definitions for proprietary software, or software with unclear licenses.crispr_DART
A workflow to analyse sequence mutations in CRISPR-CAS9 targeted amplicon sequencing dataprojectTemplate
Strategies_for_analyzing_BS-seq
SingleCell_2018
Repository for Single Cell Analysis Course in MDCscmaui
pigx_chipseq
Pipeline for Analysis of ChIP-Seq dataikarus---auxiliary
scbrowse
An interactive browser for single-cell ATAC-seq dataRCAS
R package for the RNA Centric Annotation System (RCAS)ccfDNA_ACSS_manuscript
The repo for the manuscript "Cardiovascular disease biomarkers derived from circulating cell-free DNA methylation"slimR
Short Linear Motif (SLiM) Analysis in the context of human diseasespigx_docs
Documentation for PiGxguix.install
Install (and import) R packages with Guix from within your R sessionscregseg
Single-cell regulatory landscape segmentationhtd3
visualisation library for genetic data based on d3.jsuyar_et_al_multiomics_deeplearning
maui goes pancancermergenstudio
scipipeline
Snakemake pipeline for processing single-cell combinatorial indexing ATAC seq datapuppet-bimsb-guix
Puppet module for deploying Guixsudo
Mattermost botbimsbbioinfo.github.io
website for the platformmultiomics_vs_panelseq
The repo of the "Multi-omics alleviates the limitations of panel-sequencing for cancer drug response prediction" manuscriptreg2gene
flexynesis-benchmarks
Comprehensive continuous benchmarking of tools for multi-omics data integrationRCAS_meta-analysis
The repo is to host the scripts and the results of multiple RBPs.rcas-web
Web interface for RCASscmaui-experiments
Tutorials for scMauifroehlich_uyar_et_al_2020
MyoExplorer
Companion code for: Kim et. al., Single-nucleus transcriptomics reveals functional compartmentalization in syncytial skeletal muscle cellsmakeNGSnake
spatialNetSmooth
ZarrArray
Zarr backend for DelayedArray objectsLove Open Source and this site? Check out how you can help us