...
- HISAT2: Spliced alignment of reads to the genome
- Stringtie: Assembly of transcripts based on mapping to genome, including novel transcripts. Quantification of these transcripts.
- Ballgown: Identification of differentially expressed genes and transcripts.
We are going to run this on stampede2 as well. Let's do this in an idev session today just so you can see how fast it is
| Code Block | ||
|---|---|---|
| ||
cds cd my_rnaseq_course cd day_3_partB/stringtie_ballgown |
...