I have 2 sequence reads archive and I want to do some RNA-Seq analysis on them.
Archive 1 : SRR1177960 (FastQ Files : SRR1177960_1, SRR1177960_2)
Archive 2 : SRR1177961 (FastQ Files : SRR1177961_1, SRR1177961_2)
I aligned both archives using HISAT2, and I got the results (BAM files).
Then I pass the results of each archive separately to Cufflinks, and I got the results (GTF files).
Then I pass the results to Cuffmerge, and I got the result (GTF file).
Then I pass the Cuffmerge result + HISAT2 result of archive 1 to the Cuffquant, and I got the result (CXB file).
BUT when I pass the Cuffmerge result + HISAT2 result of archive 2 to the Cuffquant, I got error
BAM record error: found spliced alignment without XS attribute
I attached the full text of error : cuffquant_error_archive2.txt
Can you help me?
(I forgot to say that I'm using Galaxy usegalaxy.org))