somet3000

hugo-PaperMod

A fast, clean, responsive Hugo theme.

umap

Uniform Manifold Approximation and Projection

snakemake

This is the development home of the workflow management system Snakemake. For general information, see

STAR

RNA-seq aligner

blogdown

Create Blogs and Websites with R Markdown

bwa

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

picard

A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

harmony

Fast, sensitive and accurate integration of single-cell data with Harmony

scg_lib_structs

Collections of library structure and sequence of popular single cell genomic methods

atac-seq-pipeline

ENCODE ATAC-seq pipeline

rmats-turbo

numbat

Haplotype-aware CNV analysis from single-cell RNA-seq

Drop-seq

Java tools for analyzing Drop-seq data

datavzrd

A tool to create visual HTML reports from collections of CSV/TSV tables

sccomp

Testing differences in cell type proportions from single-cell data.

borzoi

RNA-seq prediction with deep convolutional neural networks.

BuenColors

R package of colors for the Buenrostro Lab

SCENT

Single-Cell ENhancer Target gene mapping using multimodal data with ATAC + RNA

FlashFry

FlashFry: The rapid CRISPR target site characterization tool

rhdf5

Package providing an interface between HDF5 and R

locuszoom-standalone

Create regional association plots from GWAS or meta-analysis

caviar

SCARlink

RNAEditingIndexer

A tool for the calculation of RNA-editing index for RNA seq data

t2t-variants

guidescan-cli

A gRNA database generation tool.

CRISPR-JAMBOREE

2nd IGVF CRISPR-JAMBOREE

GLiMMIRS

GLiMMIRS: Generalized Linear Models for Measuring Interactions between Regulatory Sequences

pyro_tutorial