Difference between revisions of "RNA Seq on HPC"
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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/ | 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/ | ||
| − | [[ | + | [[ # Introduction ]] |
[[ 1.1 RNA-Seq analysis tools ]] | [[ 1.1 RNA-Seq analysis tools ]] | ||
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[[ 6. The tuxedo pipeline]] | [[ 6. The tuxedo pipeline]] | ||
| − | + | [[ 6.1 Genome indexing for bowtie ]] | |
[[ 6.2 Read mapping using topcoat ]] | [[ 6.2 Read mapping using topcoat ]] | ||
Revision as of 14:17, 25 January 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
6.2 Read mapping using topcoat
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
