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cellranger
10x Genomics Single Cell Analysisvartrix
Single-Cell Genotyping Toolrust-boomphf
Fast and scalable minimal perfect hashing for massive key setsloupeR
Convert Seurat objects to 10x Genomics Loupe files.single-cell-3prime-paper
subset-bam
rust-debruijn
De Bruijn graphs in Rustbamtofastq
Convert 10x BAM files to the original FASTQs compatible with 10x pipelinesscHLAcount
Count HLA alleles in single-cell RNA-seq datarust-pseudoaligner
Single-Cell RNA-seq pseudo-alignerrust-shardio
Out-of-memory sorting of large datasets map / reduce style processingenclone
VDJ Clonotyping & Analysis Toolsrust-toolbox
Rust utility codeHumanColonCancer_VisiumHD
Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using high definition spatial profiling"longranger
10x Genomics Linked-Read Alignment, Variant Calling, Phasing, and Structural Variant Callinglariat
Linked-Read Alignment Toolsingle-cell-3prime-snp-clustering
rust-bwa
Rust wrapper of the BWA C APIcellranger-atac
scan-rs
Single-cell analysis methods in Rustfastq_set
Tools for working FASTQ files from sequencers (R1/R2/I1/I2)orbit
Rust wrapper for STAR alignerjanesick_nature_comms_2023_companion
Code companion to the publication "High resolution mapping of the breast cancer tumor microenvironment using integrated single cell, spatial and in situ analysis of FFPE tissue"thermite
Spliced short read aligner implemented in Rustwebsummary
Generate an HTML report in Rustanalysis_guides
10x Genomics analysis guides filesenclone_ranger
Core components for enclonesupernova-chili-pepper
rules_conda
Bazel rules for creating conda environmentslouvain
Louvain graph clusteringcellranger-dna
Single Cell DNA Copy Number ProfilingLove Open Source and this site? Check out how you can help us