Where:
Run rnaspades in the same folder as your RNA-seq reads. (Use File
--> OpenDir to open a new window in your reads folder.)
Input:
RNAseq reads: Before opening this
menu, select RNA
readfiles. For paired-end reads rnaspades, works with
pairs of files. Files can be selected in pairs using File
--> guesspairs.py.
Output:
The default "../reads.trimmed.corrected.rnaspades" means that output files
will be written to a folder in the parent folder (..) called
rnaspades.
The most useful human-readable output files:
rnaspades.log - Detailed progress on the assembly.