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ParBLiSS / FastANI

Fast Whole-Genome Similarity (ANI) Estimation
Apache License 2.0
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Column labels of the visual output #97

Open rotheconrad opened 2 years ago

rotheconrad commented 2 years ago

Hello,

I would like to know what the values of each column are in the visual output and are NA expected for some of the columns?

I am seeing: genome1 genom2 98.3572 NA NA NA 543000 545999 2088 5087 NA NA

thanks you,

cjain7 commented 2 years ago

This input is fed to genoPlotR package of R. This package has more features which we don't use. For example, we draw a line segment between query and reference genome for each bidirectional-best match. We could have optionally put a text label / annotation on each segment, but we leave that column as "NA".

genoPlotR manual: https://cran.r-project.org/web/packages/genoPlotR/vignettes/genoPlotR.pdf

rotheconrad commented 2 years ago

Thanks Chirag,

Could you explicitly state the data column labels for me though? Specifically for the last four data entries: genome1 genom2 98.3572 NA NA NA 543000 545999 2088 5087 NA NA

Is 543000 Start and 545999 Stop? Are 2088 and 5087 the same fragment columns from the normal output?

This is not clear to me from the FastANI doc or the genoPlotR manual.

Thank you, Roth