rstatistics's repositories
counts2tpm
counts to tpm/fpkm
subset-fastq
subset_fq.pl: subset paired fastq files in parallel
AML-CRNDE-Analysis
Oncogenic role of lncRNA CRNDE in acute promyelocytic leukemia and NPM1-mutant acute myeloid leukemia
H3N2_scRNA_data
In-vitro H3N2 infection scRNA-seq dataset
BBMap
(Not Offical) BBMap short read aligner, and other bioinformatic tools.
bioconda-recipes
Conda recipes for the bioconda channel.
CeleScope-1
GEXSCOPE Single Cell Analysis Tool Kit
Contributions
Contribute Packages to Bioconductor
Depix
Recovers passwords from pixelized screenshots
Drop-seq
Java tools for analyzing Drop-seq data
genepattern-server
The GenePattern Server web application
ggrastr
Raster geoms for ggplot2
ggsci
🦄 Scientific journal and sci-fi themed color palettes for ggplot2
harmony
Fast, sensitive and accurate integration of single-cell data with Harmony
Krona
Interactively explore metagenomes and more from a web browser.
natural-earth-vector
A global, public domain map dataset available at three scales and featuring tightly integrated vector and raster data.
NeoFuse
NeoFuse is a user-friendly pipeline for the prediction of fusion neoantigens from tumor RNA-seq data.
PathogenTrack
A pipeline to identify pathogenic microorganisms from scRNA-seq raw data.
PathogenTrackExplorer
R toolkit for exploring intracellular pathogens at Single-Cell level
pavian
🌈 Interactive analysis of metagenomics data
polyester
Bioconductor package "polyester", devel version. RNA-seq read simulator.
scirpy
A scanpy extension to analyse single-cell TCR and BCR data.
scmap
A tool for unsupervised projection of single cell RNA-seq data
scNSCLC_matrices
NSCLC scRNA matrices
seurat
R toolkit for single cell genomics
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"
single_cell_eb
Empirical Bayes methods for single cell data
venn
Draw Venn Diagrams