Single cell RNA-seq

10X platform
https://support.10xgenomics.com/single-cell-gene-expression/software/downloads/latest

https://scanpy.readthedocs.io/en/latest/examples.html

http://cf.10xgenomics.com/supp/cell-exp/megacell_tutorial-1.0.1.html

http://cf.10xgenomics.com/supp/cell-exp/cellrangerrkit-PBMC-vignette-knitr-2.0.0.pdf

http://satijalab.org/seurat/

https://portals.broadinstitute.org/single_cell

Can not get long noncoding transcripts

https://academic.oup.com/bfg/advance-article/doi/10.1093/bfgp/elx035/4604806

know the single cell sequencing processes

https://community.10xgenomics.com/t5/10x-Blog/Single-Cell-RNA-Seq-An-Introductory-Overview-and-Tools-for/ba-p/547

resources

https://hemberg-lab.github.io/scRNA.seq.datasets/mouse/tissues/
https://hemberg-lab.github.io/scRNA.seq.course/introduction-to-single-cell-rna-seq.html#challenges
https://github.com/seandavi/awesome-single-cell
https://github.com/diazlab/SCell
https://www.10xgenomics.com/resources/publications/?solution=single-cell&research-area=cancer-research
http://science.sciencemag.org/content/early/2016/07/27/science.aad7038.full

standard analysis

https://support.10xgenomics.com/single-cell-gene-expression/software/downloads/latest
http://go.10xgenomics.com/software-demos/single-cell-gene-expression

analysis method

https://www.nature.com/articles/s41467-017-02554-5
https://genomebiology.biomedcentral.com/articles/10.1186/s13059-017-1305-0
https://genomemedicine.biomedcentral.com/articles/10.1186/s13073-017-0492-3
http://ilab.hawaii.edu:8116/?state_id=f88ab815a1831b34&tab=info
https://www.nature.com/articles/nmeth.4463
https://www.nature.com/articles/s41593-017-0056-2
http://www.pnas.org/content/114/37/E7786

visualization

https://shiny.rstudio.com/gallery/genome-browser.html