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zerodel / sailfish-cir

a pipeline for quantification of circular RNA.
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quantifying circRNA transcripts #3

Open KateK opened 6 years ago

KateK commented 6 years ago

Hi!

I have two questions:

  1. There is no explenation what exacly mean column names in quant.sf file. Do you have such information?

  2. When i try to count expected number of reads arising from specific transcripts using your approach there is problem that some rows (transcripts) are dubbled and expeted value for them differs. Can you help me with this issue?

Regards! Katarzyna Kozłowska

CarlosAlfonsoG commented 5 years ago

Did you got an answer?

likelet commented 5 years ago

seem the author of this repo do not maintain their code and also not give feedback to the issues

rob-p commented 5 years ago

Hi @CarlosAlfonsoG & @likelet --- I cannot answer (2), but you can find a description of the meanings of the columns in quant.sf in the documentation for the salmon quantification tool.

likelet commented 5 years ago

hi @rob-p , did you encounter this error before? , I am not sure whether the dependencies were properly installed. 

[info] Building 32-bit suffix array (length of generalized text is 0)
Building suffix array . . . FAILURE: return code from libdivsufsort() was -1