RNAseq workflow

RNAseq-GSEA

reference packages manual

clusterprofiler https://yulab-smu.top/biomedical-knowledge-mining-book/index.html
ComplexHeatmap https://jokergoo.github.io/ComplexHeatmap-reference/book/
ggVennDiagram https://gaospecial.github.io/ggVennDiagram/articles/using-ggVennDiagram-cn.html
NOISeq https://www.bioconductor.org/packages/release/bioc/html/NOISeq.html
pathfindR https://cran.r-project.org/web/packages/pathfindR/vignettes/intro_vignette.html
decoupleR https://www.bioconductor.org/packages/release/bioc/html/decoupleR.html
iPath https://www.bioconductor.org/packages/release/bioc/html/iPath.html
EnhancedVolcano https://bioconductor.org/packages/release/bioc/vignettes/EnhancedVolcano/inst/doc/EnhancedVolcano.html

work shop

DGE_workshop https://hbctraining.github.io/DGE_workshop/schedule/1.5-day.html
rna-seq-analysis https://learn.gencore.bio.nyu.edu/rna-seq-analysis/over-representation-analysis/

analysis website

string https://string-db.org/
iPath https://suke18.shinyapps.io/iPath/
timer http://timer.comp-genomics.org/timer/
metascape https://metascape.org/gp/index.html#/main/step1
stemchecker http://193.136.227.155:8080/stemchecker/stemchecker.jsf geneontology https://geneontology.org/
DiVenn https://divenn.tch.harvard.edu/v2/

software

MapMan https://mapman.gabipd.org/mapman
GSEA https://www.gsea-msigdb.org/gsea/index.jsp