Arya's repositories
awesome-single-cell
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
bustools
Tools for working with BUS files
cheatsheets
RStudio Cheat Sheets
coreutils
upstream mirror
cscMap
cscMap is a bioinformatics pipeline to search for the RNA chimeras resulted from fusions of the transcripts encoded by the two opposite DNA strands.
deep-learning-with-python-notebooks
Jupyter notebooks for the code samples of the book "Deep Learning with Python"
DeepLearningExamples
State-of-the-Art Deep Learning scripts organized by models - easy to train and deploy with reproducible accuracy and performance on enterprise-grade infrastructure.
deepmind-research
This repository contains implementations and illustrative code to accompany DeepMind publications
GenomicFeatures
Conveniently import and query gene models
ggplot-courses
👨🏫 ggplot2 Teaching Material
hmmlearn
Hidden Markov Models in Python, with scikit-learn like API
isoCirc
isoCirc
long_read_circRNA
CircRNA detection in nanopore data
PHATE
PHATE (Potential of Heat-diffusion for Affinity-based Transition Embedding) is a tool for visualizing high dimensional data.
psirc
Full-length linear and circular transcript isoform reconstruction and quantification
python-genomics
A set of files to do genomics analysis on python
scRNA.seq.course
Analysis of single cell RNA-seq data course
Seurat3-plus
A set of R codes to make Seurat3 running easier
sicelore
Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanopore long read sequencing data.
single-cell-tutorial
Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"
statistic
collecting books, papers and docs.
tfmodisco-lite
A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.