Hello trinity users I used Trinity to assemble ~700M paired-end reads using the following command "Trinity.pl --seqType fq --left left.fq --right right.fq --SS_lib_type FR --output ./ --JM 300G --CPU 15" The run was successful, and I got a list of contigs. Now I realize that the data was not strand specific, and I am wondering how does the adding of "--SS_lib_type FR" parameter affect the assembly. Shall I redo the assembly? Thanks Mali
Hello trinity users I used Trinity to assemble ~700M paired-end reads using the following command "Trinity.pl --seqType fq --left left.fq --right right.fq --SS_lib_type FR --output ./ --JM 300G --CPU 15" The run was successful, and I got a list of contigs. Now I realize that the data was not strand specific, and I am wondering how does the adding of "--SS_lib_type FR" parameter affect the assembly. Shall I redo the assembly? Thanks Mali
I don't think this is the mailing list you are looking for. Perhaps you meant the Trinity RNA sequencer list at https://lists.sourceforge.net/lists/listinfo/trinityrnaseq-users ?
This list is for discussion about the Trinity Desktop Environment: http://www.trinitydesktop.org/
Tim
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mali salmon -
Timothy Pearson