and I am trying AltAnalyze for use it with bulk RNAseq using my fastq. I followed your directions but I got an error all the time. Could you please help me to fix this issue?
Pre-processing input files
Building kallisto index file...
Running kallisto on: sample1 ... kallisto failed due to an unknown error (report to altanalyze.org
Trying without BAM file creation.
Re-Building kallisto index file...
kallisto failed due to an unknown error (report to altanalyze.org
Traceback (most recent call last):
File "RNASeq.pyc", line 5283, in runKallisto
File "RNASeq.pyc", line 5409, in importTPMs
IOError: [Errno 2] No such file or directory: u'C:/Users/Carol/Desktop/kallisto///ExpressionInput/kallisto/sample1/abundance.tsv'