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aml-multistage

asub

A unified array job submitter for LSF, SGE/UGE and Slurm

bazam

A read extraction and realignment tool for next generation sequencing data

bcbio-nextgen

Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis

bioc-refcard

Bioconductor cheat sheet

buencolors

R package of colors for the Buenrostro Lab

cloudbiolinux

CloudBioLinux: configure virtual (or real) machines with tools for biological analyses

config_file

deep-learning-with-python-notebooks

Jupyter notebooks for the code samples of the book "Deep Learning with Python"

dndscv

dN/dS methods to quantify selection in cancer and somatic evolution

embl-single-cell-course-2016

Material for lecture at the EMBL Single Cell Course 2016

gene_lists

List of gene lists for genomic analyses.

hancock

Cell signatures, with confidence.

honeybadger

HMM-integrated Bayesian approach for detecting CNV and LOH events using single-cell RNA-seq data

humanidiogramlibrary

Resource of human chromosome schematics & images

icgc_gene_centric

infercna

Infer Copy Number Alterations and Clonality in (Single-Cell) RNA-Seq Data

mds-expression

R code for Combining gene mutation with gene expression data improves outcome prediction in myelodysplastic syndromes

music

Multi-sample Single Cell Deconvolution

perturbseq

Perturb-seq analysis package

pytorch-book

PyTorch tutorials and fun projects including neural talk, neural style, poem writing, anime generation (《深度学习框架PyTorch：入门与实战》)

scanpy

Single-Cell Analysis in Python. Scales to >1M cells.

scater

Clone of the Bioconductor repository for the scater package, see https://bioconductor.org/packages/devel/bioc/html/scater.html for the official development version.

scbio

Single Cell Genomics for Enhancing Cell Composition Inference from Bulk Genomics Data

scexplo

scexplorer2

schcc_manuscript_2021

scran

Clone of the Bioconductor repository for the scran package, see https://bioconductor.org/packages/devel/bioc/html/scran.html for the official development version.

scvelo

Stochastic Single Cell RNA Velocity

singlecellexperiment

Clone of the Bioconductor repository for the SingleCellExperiment package, see https://bioconductor.org/packages/devel/bioc/html/SingleCellExperiment.html for the official development version.