Question: Can IGV visualize clustal format alignment?
0
gravatar for shadowstep
19 months ago by
shadowstep0
shadowstep0 wrote:

I produced a multiple alignment using

mafft --clustalout seq.fasta > align.fa

Is there any tool to help visualize this alignment file? IGV user guide said that a BAM file is required, how could I produce BAM format alignment file? Thank you!

igv • 568 views
ADD COMMENTlink modified 19 months ago by RamRS24k • written 19 months ago by shadowstep0

IGV is not meant to be used to visualize multiple alignment files, maybe you could use the web interface of MAFFT to do your alignement, it will produce a visual output.

ADD REPLYlink written 19 months ago by guillaume.rbt730
3
gravatar for genomax
19 months ago by
genomax74k
United States
genomax74k wrote:

Why do you need IGV to visualize a MSA? You can use JalView, MEGA, Clustal etc for this purpose.

ADD COMMENTlink written 19 months ago by genomax74k
1
gravatar for Buffo
19 months ago by
Buffo1.7k
Buffo1.7k wrote:

You can visulize it with Jalview

ADD COMMENTlink written 19 months ago by Buffo1.7k
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