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rna-seq-pipeline

rna-seq-star-deseq2

RNA-seq workflow using STAR and DESeq2

rnaseq

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

rnaseq-pipeline

Nextflow pipeline that runs STAR, stringtie and splicing-analysis.

rnaseq_tutorial

Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.

rnaseq_upenn

scripts from the course on RNAseq data analysis provided by UPenn

rnaseq_workflow

snakemake workflow for bulk RNA-seq workflow using STAR-edgeR

sane_tikz

Reconquer the canvas: beautiful Tikz figures without clunky Tikz code

sars-cov-2-rbd_dms

Deep mutational scanning of the receptor-binding domain of SARS-CoV-2 Spike

sars-cov-2-transcriptome

Supplemental code for "the architecture of SARS-CoV-2 transcriptome" paper

scanindel

The integrated pipeline for Indel detection

scenic

SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.

scenicprotocol

A scalable SCENIC workflow for single-cell gene regulatory network analysis

screenbeam

Gene-level meta-analysis of high-throughput functional genomics (RNAi or CRISPR) screens.

screening_protocols_manuscript

Scripts from the Joung et al Nature Protocols 2016 manuscript on knockout and transcriptional activation screening

screpliseq-pipeline

Docker pipeline for analyzing scRepli-seq data

scrna-codes

scrna-seq

scrna.seq.course

Analysis of single cell RNA-seq data course

scrnaseq_porcine_ileum_pbmc

segmentfault-hackathon-2015

selective_activation_expansion_treg_using_lipid_encapsulated_mrna_encoding_longacting_il2_mutein

seq-align

Fast, portable C implementations of Needleman-Wunsch and Smith-Waterman sequence alignment

seurat

R toolkit for single cell genomics

seurat-to-rna-velocity

A guide to using a Seurat object in conjunction with RNA Velocity

seurocity

Easy velocity analysis using scVelo with data preprocessed in Seurat

sheng-xin-xiao-bai-yu-2021

历史文档备份（2021年）

shiny-apps

R Shiny apps

shiny_to_visualize

My practice to visualize data using shiny

shinygenes

Gene Segment Plots