RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

A collection of classes and functions which serve as an API to django.tfbindingandperturbation.com

TimeSignature R package

Aggregate results from bioinformatics analyses across many samples into a single report.

A collections of functions and utilities to perform modeling tasks on the data from django.tfbindingandperturbation.com

Repository to host tool-specific module files for the Nextflow DSL2 community!

A DSL for data-driven computational pipelines

Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing

Conda recipes for the bioconda channel.

Efficient protein domain annotation search with reduced amino acid k-mers

A shiny frontend for django.tfbindingandperturbation.com. This can be accessed at tfbindingandperturbation.com

scikit-learn: machine learning in Python

MNase-seq analysis pipeline using BWA and DANPOS2.

The best protein annotation pipeline in the world. Protein fasta → ??? → Annotations

A curated collection of Nextflow implementation patterns

Mulled - Automatized Containerized Software Repository

A pipeline for processing calling cards data

A development environment to explore implementations of deep neural networks for predicting the relationship between transcription factor and target genes using binding and perturbation data

Dual Threshold Optimization compares two ranked lists of features (e.g. genes) to determine the rank threshold for each list that minimizes the hypergeometric p-value of the overlap of features. It…

Quickly search, compare, and analyze genomic and metagenomic data sets.