I suggest extract reads from the BAM file and run the whole pipeline. Or use this trick:
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cuffnorm_XS_attribute_Error
Hello,
I have single end RNA-seq data downloaded from SRA. This RNAseq data lacks XS tag. I manually inserted XS tag by bamutils tool.
After adding XS tags, I still get the following lines:
Warning: Your version of Cufflinks is not up-to-date. It is recommended that you ecent features and bug fixes (http://cufflinks.cbcb.umd.edu).
[20:17:43] Loading reference annotation.
[20:17:50] Inspecting maps and determining fragment length distributions.
BAM record error: found spliced alignment without XS attribute
BAM record error: found spliced alignment without XS attribute
How could I solve the problem about "BAM record error..." ?
cufflinks version is 2.2.0.Last edited by woker; 06-03-2014, 05:48 AM.
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