10xgenomics Goto Github PK

analysis_guides

10x Genomics analysis guides files

ball-tree

A ball-tree implementation for K-NN

bamtofastq

Convert 10x BAM files to the original FASTQs compatible with 10x pipelines

bwa

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

cell-annotation-service-client

Python client libraries for Cellarium Cloud Cell Annotation Service (CAS).

cellranger

10x Genomics Single Cell Analysis

cellranger-atac

cellranger-dna

Single Cell DNA Copy Number Profiling

chromium-genome-paper

Analysis code from "Resolving the Full Spectrum of Human Genome Variation using Linked-Reads"

clippy-check

📎 GitHub Action for PR annotations with clippy warnings

docopt.go

A command-line arguments parser that will make you smile.

enclone

VDJ Clonotyping & Analysis Tools

enclone-data

Example datasets for use with enclone

enclone_ranger

Core components for enclone

fastq_set

Tools for working FASTQ files from sequencers (R1/R2/I1/I2)

go-sqlite3

sqlite3 driver for go that using database/sql

gpython

gpython is a python interpreter written in go "batteries not included"

hdf5-rust

HDF5 for Rust

hts

biogo high throughput sequencing repository

htslib

C library for high-throughput sequencing data formats

humancoloncancer_visiumhd

Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using high definition spatial profiling"

index_hopping_filter

Filter index-hopped reads from flowcell data

intel-mkl-src

Redistribute Intel MKL as a crate

janesick_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"

kdtree-rs

K-dimensional tree in Rust for fast geospatial indexing and lookup

lariat

Linked-Read Alignment Tool

longranger

10x Genomics Linked-Read Alignment, Variant Calling, Phasing, and Structural Variant Calling

louper

Convert Seurat objects to 10x Genomics Loupe files.

louvain

Louvain graph clustering

lz4-rs

Rust LZ4 bindings