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Old 03-01-2020, 03:03 AM   #1
Danil S.
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Location: Russia

Join Date: Mar 2020
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Default Bac ends profiling to a genome

Hi,

I am looking for the pipeline which provides bac-ends profiling to the reference genome.

I used to work with illumina myseq 16s rRNA paired-end sequences.And i used qiime2 to treat it. Now i have a sanger bac-end library of the whole genome and i need to map them to a genome sequence in order to be able to choose BAC with gene of interest.

I suppose that what i have to do is:

1.Filter out sequences that are 95% similarity or more to each other.

2.Remoove sequences which contain repeats.

3.Map remaining paired sequences.

4.Leave paires of bac-ends with unique hits only.

Thus i can choose a BAC which contains gene of interest for the further research. In theory.

Can anyone suggest tools for this work and maybe correct my "pipeline"?


Thank you!

Last edited by Danil S.; 03-01-2020 at 03:12 AM.
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Old 03-02-2020, 01:53 AM   #2
GenoMax
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Default

Cross-posted and answered on Biostars: https://www.biostars.org/p/424091/
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