Best Practices, code samples, and documentation for Computer Vision.

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ENCODE ATAC-seq pipeline

R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data

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IOBR is an R package to perform comprehensive analysis of tumor microenvironment and signatures for immuno-oncology.

Code and files for the main nf-core website.

Renders a collection of sequences into a pangenome graph. https://doi.org/10.1093/bioinformatics/btae609.

A small-RNA sequencing analysis pipeline

Pipeline for processing spatially-resolved gene counts with spatial coordinates and image data. Designed for 10x Genomics Visium transcriptomics.

Proteomics label-free quantification (LFQ) analysis pipeline

Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark/bwa-meth + MethylDackel or bwa-mem + rastair

Single-cell RNA-Seq pipeline for barcode-based protocols such as 10x, DropSeq or SmartSeq, offering a variety of aligners and empty-droplet detection

ATAC-seq peak-calling and QC analysis pipeline

Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing

ChIP-seq peak-calling, QC and differential analysis pipeline.

RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.github.io/bcftools/howtos/install.html

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Fast and Lightweight Observability Data Collector

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AnyLink是一个企业级远程办公 ssl vpn 软件，可以支持多人同时在线使用。基于 openconnect 协议开发，并且借鉴了 ocserv 的开发思路，可以完全兼容 AnyConnect 客户端。

lumpy: a general probabilistic framework for structural variant discovery

A pipeline for identifying indel derived neoantigens using RNA-Seq data

To eventually become an unofficial Pytorch implementation / replication of Alphafold2, as details of the architecture get released

AmpliconArchitect (AA) is a tool to identify one or more connected genomic regions which have simultaneous copy number amplification and elucidates the architecture of the amplicon. In the current …

Analysis of single cell RNA-seq data course