Closed xiaoyunguo closed 3 years ago
_Is there overlapping between different classes? for example in output xxx.summary.txt, I saw the following classes for tRNA. Are reads counted in tRNA_5_end (and other ends) also counted in the tRNA_MatchGenome class? Yes, one tsRNA can be annotated as tRNA 5 end and genome matched. These two kinds of annotation are independent.
_The output pdf files shows the percentage of each type of tRNA in a pie chart, how the tRNA percentage is calculated? (5-end, 3-end, and CCA-end divided by the tRNA_match_genome plus tRNA_unmatchgenome? are mitotRNA also included in the calculation? Yes, the percentage of each subtype of tsRNAs is based on all kinds of tsRNAs, including genome matched and genome unmatched.
Hi,
Thank you so much for prompt reply to my previous questions. Really appreciate it. I have more questions about interpreting the output from sports:
Is there overlapping between different classes? for example in output xxx.summary.txt, I saw the following classes for tRNA. Are reads counted in tRNA_5_end (and other ends) also counted in the tRNA_Match_Genome class?
The output pdf files shows the percentage of each type of tRNA in a pie chart, how the tRNA percentage is calculated? (5-end, 3-end, and CCA-end divided by the tRNA_match_genome plus tRNA_unmatch_genome? are mitotRNA also included in the calculation?
Thank you so much for your help!
--------- following is the classes in the summary.txt file in my case---
GtRNAdb-mature-tRNA_Match_Genome GtRNAdb-mature-tRNA_5_end_Match_Genome GtRNAdb-mature-tRNA_3_end_Match_Genome GtRNAdb-mature-tRNA_CCA_end_Match_Genome GtRNAdb-mature-tRNA_Unmatch_Genome GtRNAdb-mature-tRNA_CCA_end_Unmatch_Genome mitotRNAdb-mature-mt_tRNA_Match_Genome mitotRNAdb-mature-mt_tRNA_3_end_Match_Genome mitotRNAdb-mature-mt_tRNA_CCA_end_Match_Genome mitotRNAdb-mature-mt_tRNA_Unmatch_Genome mitotRNAdb-mature-mt_tRNA_CCA_end_Unmatch_Genome