qoldt

cellstates

Finding gene expression states in scRNA-seq data

ggstatsplot

Enhancing {ggplot2} plots with statistical analysis 📊📣

fastq-dl

Download FASTQ files from SRA or ENA repositories.

RFdiffusion

Code for running RFdiffusion

NuMetRRBS

Snakemake_ChIPseq_PE

Pipeline for the analysis of PE ChIP-seq data

approachingalmost

Approaching (Almost) Any Machine Learning Problem

byu_econ_applied_machine_learning

The course work for the applied machine learning course I am teaching at BYU

singleCellHaystack

Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).

awesome-genome-visualization

A list of interesting genome browser or genome-browser-like implementations

knowledge-repo

A next-generation curated knowledge sharing platform for data scientists and other technical professions.

DAStk

Differential ATAC-seq toolkit

MouseEpigeneticClock

scelvis

:sparkler: SCelVis - web-based visualization of single-cell data. :arrow_right: :arrow_right: Demo :arrow_right::arrow_right:

MNase_SSP

Scripts for MNase SSP analysis

slingshot

Functions for identifying and characterizing continuous developmental trajectories in single-cell data.

deeplearning-biology

A list of deep learning implementations in biology

scRNAseq-analysis-notes

scRNAseq analysis notes from Ming Tang

LIONS

LIONS is a bioinformatic analysis pipeline which brings together a few pieces of software and some home-brewed scripts to annotate a paired-end RNAseq library to detect TE-intiated transcripts

clustergrammer

An interactive heatmap visualization built using D3.js

sleuth

Differential analysis of RNA-Seq

snakepipes

Customizable workflows based on snakemake and python for the analysis of NGS data