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awesome-single-cell

List of software packages for single-cell data analysis, including RNA-seq, ATAC-seq, etc.

deepbio

deepstf

DeepSTF: Predicting transcription factor binding sites by interpretable deep neural networks combining sequence and shape

enrichtf

Bioconductor package enrichTF: Transcription Factors Enrichment Analysis

esatac

Bioconductor package esATAC: an Easy-to-use Systematic pipeline for ATAC-seq data analysis

esatac-repo

factornet

A deep learning package for predicting TF binding

ideepe

inferring RBP binding sites and motifs using local and global CNNs

jseqlogo

Sequence logos in pure Javascript

keras-genomics

Genomics layers for Keras 2

mman-win32

mman library for Windows. mirror of https://code.google.com/p/mman-win32/

neuronmotif

NeuronMotif: deciphering cis-regulatory codes by layerwise demixing of deep neural networks

neuronmotif-demo

neuronmotif_bd-10.github.io

neuronmotif_bd-5.github.io

neuronmotif_dd-10.github.io

neuronmotif_deepsea.github.io

neuronmotifbasset.github.io

notebooks

:green_book: Jupyter notebooks for demo/projects, now that github supports them

nucleoatac

nucleosome calling using ATAC-seq

pipeframe

Bioconductor/R package pipeFrame: Pipeline framework for bioinformatics in R

python3-cookbook

《Python Cookbook》 3rd Edition Translation

rbowtie2

Bioconductor package: an R wrapper for Bowtie2 and AdapterRemoval

resume

An elegant \LaTeX\ résumé template

rweblogo

RWebLogo is a wrapper R package for the popular WebLogo that allows plotting of customised sequence logos.

wzthu.github.io

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