Unequal global summary in output files

[Полина Казакова]

Hello!

Output files from QualiMap can be of different formats: html, txt, pdf. But they consist not equal information. For example, txt file doesn-t consist information about clipped reads, but consist other information about global summary. Why?

Thanks.

Best regards, Polina.

[Konstantin Okonechnikov]

Hi!

Initially visual reports (HTML and PDF are the same) were designed as main,  and text reports were included as additional extensions for further usage, therefore there are variances. Is there a lack of specific useful information in text reports e.g. clipped reads? It could be integrated if you note the corresponding labeles. Also, what global information is lacking in HTML/PDF reports? For example, coverage reports are extended in txt, but everything is visualized in corresponding figures (Coverage Histogram) in HTML/PDF. 

Best regards,

   Konstantin

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[Polina Kazakova]

Thanks for your answer!

TXT files are the most easier for parsing and so I searched information about clipped reads there, but I didn't find. I can parse html or pdf reports too, but it'd be great if txt files consist all information from part "2.1. Globals".

HTML/PDF reports consist all the necessary information.

Best regards,

Polina.