Hi all,
I am completely new in use of SAM tools and any kind of next. gen. seq. data analysis. Also I don’t have any experience with writing scripts…
We just got sequencing data (small RNA) from our run at Ion Torrent PGM sequencer. Data are in BAM format. Based on what I have found, these data have to firstly be sorted, indexed from which BAI file will be generated. In this format data (sequences reads) can be viewed by other programs (e.g. Bamview).
I have downloaded SAM tools, unzipped tar file (samtools-0.1.19.tar.bz2) and got samtools folder with different files.
If I want to sort, index my BAM data how can I do that exactly (step-by-step)? I have Mac OS - can I used application called Terminal?
I don’t plan to use this program for much more than just sorting, indexing my files (if this is the only thing that I need to do with them before being readable and further analysis) – can you please give me some advices how to do that?
Many thanks,
Vic
I am completely new in use of SAM tools and any kind of next. gen. seq. data analysis. Also I don’t have any experience with writing scripts…
We just got sequencing data (small RNA) from our run at Ion Torrent PGM sequencer. Data are in BAM format. Based on what I have found, these data have to firstly be sorted, indexed from which BAI file will be generated. In this format data (sequences reads) can be viewed by other programs (e.g. Bamview).
I have downloaded SAM tools, unzipped tar file (samtools-0.1.19.tar.bz2) and got samtools folder with different files.
If I want to sort, index my BAM data how can I do that exactly (step-by-step)? I have Mac OS - can I used application called Terminal?
I don’t plan to use this program for much more than just sorting, indexing my files (if this is the only thing that I need to do with them before being readable and further analysis) – can you please give me some advices how to do that?
Many thanks,
Vic
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