Where:
Run transrate in the same folder as your RNA-seq reads. (Use File
--> OpenDir to open a new window in your RNA-seq reads
folder.)
Input:
RNAseq reads: Before opening this menu, select RNA-seq
readfiles to be mapped to the genome. For paired-end reads,
transrate works with pairs of files. Files can be selected in
pairs using File --> guesspairs.py.
Transcriptome assembly file - Choose the transcriptome
output file from a transcript assembly program (eg. Trinity,
rnaspades, SOAPdenovo-Trans).
Output:
Name for output directory - Output is written in the same
directory as the transcriptome assembly, NOT in the sequencing reads
directory. By default, the directory is called transrate.
The progress of the assembly can be found in transrate.log.