RSEM (TPM): https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-12-323
RNA velocity (kallisto): https://bustools.github.io/BUS_notebooks_R/velocity.html
Gene-Drug: http://www.dgidb.org/search_interactions
Visualize Network: https://www.omicsnet.ca/
MethyCNV: http://bioconductor.org/packages/release/bioc/vignettes/conumee/inst/doc/conumee.html
SOM: #https://clarkdatalabs.github.io/soms/SOM_NBA
Splicing: rMATs
scATAC-seq: https://www.bioconductor.org/packages/devel/bioc/vignettes/cicero/inst/doc/website.html#references
Cell-Cell: https://www.bioconductor.org/packages/devel/bioc/vignettes/scTensor/inst/doc/scTensor.html
deepTools: https://deeptools.readthedocs.io/en/latest/content/tools/plotHeatmap.html
g:Profiler: https://biit.cs.ut.ee/gprofiler/gost
Homer Motif: http://homer.ucsd.edu/homer/download.html
WGCNA: an R package for weighted correlation network analysis: https://horvath.genetics.ucla.edu/html/CoexpressionNetwork/Rpackages/WGCNA/
CisTrome: http://cistrome.org/#
WashU browser: http://epigenomegateway.wustl.edu/legacy/
XenaBrowser: https://xenabrowser.net/datapages/
TCGA ATAC: https://gdc.cancer.gov/about-data/publications/ATACseq-AWG
Enrichr: http://amp.pharm.mssm.edu/Enrichr/
GeneMANIA: https://genemania.org/
PathwayCommons: https://www.pathwaycommons.org/
PathView: https://pathview.uncc.edu/
The Human Protein Atlas: https://www.proteinatlas.org/
R2 Cancer Database: https://hgserver1.amc.nl/cgi-bin/r2/main.cgi
Sequence Logo: https://weblogo.berkeley.edu/logo.cgi
Sequence Logo (compare): http://www.twosamplelogo.org/cgi-bin/tsl/tsl.cgi
VizioMetrics: http://viziometrics.org/search/
3D Hotspots: http://www.3dhotspots.org/#/home
OncoKB: http://oncokb.org/#/about
Personalized Cancer Therapy: https://pct.mdanderson.org/
FASMIC: http://ibl.mdanderson.org/fasmic/#!/
Allen Brain Atlas: http://www.brain-map.org/
Ecological Data Wiki: https://ecologicaldata.org/home
Marcher: https://cran.r-project.org/web/packages/marcher/vignettes/marcher.html
Ocean Biogeographic Information System: http://www.iobis.org/ , http://www.iobis.org/manual/visualization/
UCSC ENCODE composite: http://hgdownload.cse.ucsc.edu/goldenpath/hg19/encodeDCC/wgEncodeUwDgf/
Cell line microarray: http://cellexpress.cgm.ntu.edu.tw/
IntoGen: https://www.intogen.org
GEPIA: http://gepia.cancer-pku.cn/index.html
CoExpress: http://coxpresdb.jp, http://www.genefriends.org/RNAseq/
TF-JASPAR: http://jaspar.genereg.net
MicroRNA: http://mirtarbase.mbc.nctu.edu.tw/php/index.php
LINCS: http://www.lincsproject.org/LINCS/
3DSNP: http://cbportal.org/3dsnp/
TF CHIP-seq database GTRD: http://gtrd.biouml.org
TF Target Gene database TRRUST: http://www.grnpedia.org/trrust/
Tissue Specific Expression Analysis (TSEA): http://genetics.wustl.edu/jdlab/tsea/
Cell Type CTEN: http://www.influenza-x.org/~jshoemaker/cten/
Broad Institute Cancer Cell Line: https://portals.broadinstitute.org/ccle
Cancer Genetiv Web: http://www.cancer-genetics.org/
Single Cell database: http://single-cell.clst.riken.jp/, https://portals.broadinstitute.org/single_cell'
R mclust: https://cran.r-project.org/web/packages/mclust/index.html
R princurve: https://cran.r-project.org/web/packages/princurve/index.html
R mixtools: https://cran.r-project.org/web/packages/mixtools/vignettes/mixtools.pdf
Gene Fusion FACTERA: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4296148/
TCGA analysis cbioportal: http://www.cbioportal.org/
http://gdac.broadinstitute.org/#, http://bioinformatics.mdanderson.org/TCGA/NGCHMPortal/
https://bioconductor.org/packages/release/bioc/vignettes/vidger/inst/doc/vidger.html
https://deepcognition.ai/products/desktop/
Name: https://www.nameacronym.net/, https://acronymify.com/
https://blog.csdn.net/kmd8d5r/article/details/80879161
ccRemover: https://cran.r-project.org/web/packages/ccRemover/vignettes/ccRemover_tutorial.html
RNASeqPower: https://bioconductor.org/packages/release/bioc/manuals/RNASeqPower/man/RNASeqPower.pdf
Motif compare: http://rsat.sb-roscoff.fr/
CNN Motif: https://github.com/davek44/Basset
Github: https://blog.csdn.net/emaste_r/article/details/19560321
KEGG visualization: Pathview Web: user friendly pathway visualization and data integration
Homogeneity of variance test: https://www.jianshu.com/p/dc8896fcd505