Appendix IV. Teaching Materials

Teaching Lecture PPTs

Teaching Docker

Chapter

Docker Images

外挂文件

Software Installed

PART I + II + PART III.1-3

bioinfo_PartI-PartII-PartIII1-3.tar.gz

NA

BLAST 2.6.0+; bowtie 1.0.0; samtools 1.7 (using htslib 1.7-2); TopHat v2.0.9; cufflinks v2.1.1; cuffmerge v2.1.1; cuffdiff v2.1.1; R 3.5.1; perl v5.26.1; Python 2.7; bamtools 1.0.2; java 1.8.0_181; rMATS-turbo-Linux-UCS4 v3.1.0; homer v4.10.3;

PART III.4.network

bioinfo_PARTIII4.network.tar.gz

NA

R 3.5.1; miRanda-aug2010; psRobot v1.2; bedtools v2.27.1

PART III.5.motif

NA

R 3.5.1; meme 4.11.4; RNAfold 2.4.8; BEAM; RNApromo

PART III.6.RNA Regulation Analysis 1

bioinfo_rnaeditor.tar.gz

data2_part1.zip data2_part2.zip

RNAEditor

PART III.6.RNA Regulation Analysis 2

bioinfo_tsinghua_6.2_apa_6.3_ribo_6.4_structure.tar.gz

perl v5.26.1; DaPars; Ribowave; R 3.5.1; bedtools v2.25.0; shapemapper

PART III.7.Clinical Analysis

NA

R 3.5.1; Python 2.7

Teaching Videos

Content

Youtube

Bilibili

How to use docker

@Youtube

@Bilibili

Linux - Vim

@Youtube

@Bilibili

Genome Browser: IGV

@Youtube

@Bilibili

Genome Browser: UCSC

@Youtube

@Bilibili

Source Files (Private) @ Tsinghua Cloud