Open colindaven opened 7 years ago
Dear Colin,
Thank you for your useful comments, I just commit a new version with sample input files, data, and an easy-to-follow Readme file. Please let me know if you feel something still needs to be there.
Cheers,
Siavash
Siavash Sheikhizadeh Anari Bioinformatics Group Wageningen University Droevendaalsesteeg 1, 6708PB Building/Room: 107/W1.Ad.054
From: colindaven notifications@github.com Sent: 19 September 2016 12:58 To: Sheikhizadeh/pantools Subject: [Sheikhizadeh/pantools] Examples ? (#3)
Hi,
this is highly interesting software, and easy to use being Java.
However, a great number of sub commands using various different formats are available. I think it would be highly beneficial to put an example set onto github detailing example commands and example file formats.
For example, I successfully build pangenomes but cannot annotate them successfully - (0 genes annotated, no errors or warnings) and query also failed (using the 1st query from the paper adapted to my data).
So I think you have examples - e.g. the Ecoli or HIV would be perfect - and it would be great to see that posted when you have a moment.
Just my 2 cents.
Thanks, Colin
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Dear Siavash,
thanks a lot, that looks very helpful. I'll have another go at the annotation part.
cheers, Colin
Hi,
this is highly interesting software, and easy to use being Java.
However, a great number of sub commands using various different formats are available. I think it would be highly beneficial to put an example set onto github detailing example commands and example file formats.
For example, I successfully build pangenomes but cannot annotate them successfully - (0 genes annotated, no errors or warnings) and query also failed (using the 1st query from the paper adapted to my data).
So I think you have examples - e.g. the Ecoli or HIV would be perfect - and it would be great to see that posted when you have a moment.
Just my 2 cents.
Thanks, Colin