Question: Bacterial Sequence for Variant Analysis
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gravatar for ppurkayastha2010
19 months ago by
ppurkayastha201030 wrote:

I am analyzing paired-end data for bacterial genome and have done the following steps:

*FASTQC analysis

*Trim Galore

*Bowtie2

I have got a BAM file after the alignment with reference sequence using Bowtie2.

Please let me know what are steps I should follow for variant analysis and to check the number of different mutations.

rna-seq snp • 1.1k views
ADD COMMENTlink modified 19 months ago by m.bernt20 • written 19 months ago by ppurkayastha201030
2
gravatar for m.bernt
19 months ago by
m.bernt20
m.bernt20 wrote:

The following tutorial might be a good starting point:

https://galaxyproject.org/tutorials/var_hap/

ADD COMMENTlink written 19 months ago by m.bernt20

How can the steps for human mitochondrial genome used for bacterial genome?

ADD REPLYlink written 19 months ago by ppurkayastha201030
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