.hits format in NGS

Question

[se69farahi]

Hi every body,

I'm new bio researcher and I want to implement different methods for bio data. I need a aligned data from next-gen sequence. I found several data by ".hits" format and I don't know this format needs what kind of module to read in python. I don't have any image from NGS file. Finally, please suggest to me any aligned data for download. Thank you :)

[WouterDeCoster]

I'm not sure if I understand your question, but aligned sequences in the NGS-field are most commonly in sam or bam format (in which bam is the binary format of sam).

[se69farahi]

thanks , I use windows 64-bit and I can not install pysam on it. should I install linux ???

[WouterDeCoster]

That will make most bioinformatics things less painful...

[se69farahi]

So it does not work in windows??

[ammarsabir15]

Yes pysam does not work on windows . You have to come to linux if you wanna install it.

Answer 1

[GenoMax]

Aligned data in NGS generally uses SAM format. You can use pysam module to work with SAM/BAM files in python. An example sam file can be found here.