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13 months ago
Foad
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10
Hello,
I am trying to generate a count matrix using abundance_estimates_to_matrix.pl script in Trinity, but I keep running into the same error.
/usr/lib/trinityrnaseq/util/abundance_estimates_to_matrix.pl --est_method RSEM --gene_trans_map --name_sample_by_basedir GSNO_rep1/RSEM.isoforms.results GSNO_rep2/RSEM.isoforms.results GSNO_rep3/RSEM.isoforms.results wt_rep1/RSEM.isoforms.results wt_rep2/RSEM.isoforms.results wt_rep3/RSEM.isoforms.results
-reading file: GSNO_rep1/RSEM.isoforms.results
-reading file: GSNO_rep2/RSEM.isoforms.results
-reading file: GSNO_rep3/RSEM.isoforms.results
-reading file: wt_rep1/RSEM.isoforms.results
-reading file: wt_rep2/RSEM.isoforms.results
-reading file: wt_rep3/RSEM.isoforms.results
Outputting combined matrix.
Error, the column headings: RSEM RSEM RSEM RSEM RSEM RSEM are not unique. Should you consider using the --name_sample_by_basedir parameter? at /usr/lib/trinityrnaseq/util/abundance_estimates_to_matrix.pl line 247.
