Hello I denovo assembled my samples and then transcript abundance estimatin with RSEM. Now, I would like to filter low expressed transcripts. Fot this I am feeding TPM matrix expression file as well as the Trinity.fasta file to "filter_low_expr_transcripts.pl". I use the following command as mentioned in the mannual:
tb44227@lido-gw02:~/nobackup/Radula_data/trinity_a2b2_seq_111016_1333/RSEM/RSEM_BWT2>~/nobackup/bioinfo_package/trinityrnaseq-2.2.0/util/filter_low_expr_transcripts.pl --matrix trans_counts.TPM.not_cross_norm --transcripts Trinity.fasta --min_expr_any 5 --highest_iso_only --trinity_mode
and I got the following error message
Error, --min_pct_iso and --highest_iso_only are mutually exclusive parameters. at /home/tb44227/nobackup/bioinfo_package/trinityrnaseq-2.2.0/util/filter_low_expr_transcripts.pl line 90.
I tried to google it filter_loq_expression_reads but could not find the way to fix it.
Any suggestion to fix this issue: