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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!
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!
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