Hi Paula,
More details on the spreadsheet columns are available here:
http://sanger-pathogens.github.io/Roary/index.html#gene_presence_absencecsv

Investigate indicates that we think theres something not right about the
contig that the gene is located on. For example if you have a lot of
contigs with a single gene on them it could indicate contamination. So
these are flagged as potentially problematic and we indicate to the
researcher that they should manually investigate further to see if there is
an underlying issue with this data.
Regards,
Andrew

On 2 September 2016 at 14:37, Paula notifications@github.com wrote:

Hi,
I used "query_pan_genome -a difference" to compare 2 samples. I've tried
to find a detailed explanation about each *_statistics.csv output column,
but I couldn't read anything related to it.
I'm a bit confused about "genome fragment2 and "accessory fragment" and
its order, but what it's more important for me is the meaning of
"investigate" of the QC column.

Thank you in advance for your time.

Best,
Paula

—
You are receiving this because you are subscribed to this thread.
Reply to this email directly, view it on GitHub
#275, or mute the thread
https://github.com/notifications/unsubscribe-auth/AABeV67YfElV1bioHHmoF733SwSBjeeKks5qmCa2gaJpZM4JztxV
.