Difference between revisions of "RNA Seq on HPC"
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[[ 6.1 Genome indexing for bowtie ]] | [[ 6.1 Genome indexing for bowtie ]] | ||
− | [[ 6.2 Read mapping using | + | [[ 6.2 Read mapping using tophat ]] |
[[ 6.3 Transcriptome reconstruction and expression using cufflinks ]] | [[ 6.3 Transcriptome reconstruction and expression using cufflinks ]] |
Revision as of 13:23, 4 February 2016
The following Hands-on tutorial is based on the EBI teaching materials from Myrto Kostadima and Remco Loos at https://www.ebi.ac.uk/training/online/
6.1 Genome indexing for bowtie
6.3 Transcriptome reconstruction and expression using cufflinks
6.4 Differential Expression using cuffdiff
7. Using STAR for read mapping
7.3 Using cuffdiff on STAR mapped reads
8. De novo assembly with Velvet