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jts / nanopolish

Signal-level algorithms for MinION data
MIT License
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the meaning of head of polyA tail output #1101

Open zhenyu7500 opened 10 months ago

zhenyu7500 commented 10 months ago

Hello, thank you for writing such a good software!

but I have same questions about the head of the output of the polyA tail length. these is 10 columns in the output file : readname contig position leader_start adapter_start polya_start transcript_start read_rate polya_length qc_tag. I noticed that you've drawn a diagram of the direct rna sequence data. The software documentation briefly explains the meaning of each column in the head. But could you please explain each columns of the head in more detail?
I marked some positions in the drs diagram with 1, 2, 3, 4, and 5. 1 and 2 are the head and tail of the start region, and so on. Could you please explain the region of leader_start adapter_start polya_star transcript_start in the diagram? And the column of position, I think it represents 5' start of the last exon, Is this correct? image 647cdfbcaa3d0eb3423834c44965908b

thanks for your help! best wish!

Zhenyu

Bhavesh-Tiwarekar commented 5 months ago

Hello!

I have performed the polyA analysis and want to understand if there is a way to map the polya_start and transcript_start back to the genomic co-cordinates.

Thank you. Bhavesh