lauraht - 2018-07-30

Hello!

I was running TransComb on the alignment BAM file not generated by Tophat2, and I got the following error message:

** Important Note **
Please make sure that each pair of reads have identical names (Details in README file)
and the BAM file was generated by Tophat2.
Or you may encounter an error.

** Please check the following two possible reasons for running error ... **
1) A pair of RNA-seq reads have two different names (Details in README file).
If this is the case, please use /TransComb/build/CorrectName to solve.
2) The input BAM file was not generated by Tophat2.
If this is the case, please try tophat2 to map your reads.

Does this mean TransComb only supports the alignment BAM file generated by Tophat2?

I was wondering if there is a way we could still run TransComb on the alignment BAM file generated by other RNA-seq aligners?

Thank you very much!

 

Last edit: lauraht 2018-08-06