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bergamot

bokeh

Interactive Web Plotting for Python

causalpath

A project for exploring differentially active signaling paths related to proteomics datasets

cnv_and_aneuploidy_dual_integration

This script is designed to integrate and compare CNV and Aneuploidy calls from case and control samples with paired dual variant annotation results. This script will generate an .xlsx that contains SVs, CNVs and Aneuploidies unique to the designated case.

decoupler

R package to infer biological activities from omics data using a collection of methods.

decoupler_workflow

Snakemake decoupleR wrapper

decouplerbench

Package to benchmark methods from decoupleR

deepimmuno

Deep-learning empowered prediction and generation of immunogenic epitopes for T cell immunity

fpkm-manager

A python package to aid in the interpretation of quantified transcript abundances from RNA-Seq data

miso-utilities

A python package which provides a suite of functions to aid in the generation and interpretation of MISO data

omics-qc-pipeline

Pipeline to assess quality of Omics datasets

omkar

Karyotyping tool using OM data. This code is licensed to Bionano companey

regulon-enrichment

rna-seq-star-deseq2

RNA-seq workflow using STAR and DESeq2