Comments (3)
correction - the file I ran was Mels_MLSA7_genomes_noST10_ML.nwk, not newick.
Original comment by [email protected]
on 3 Apr 2015 at 7:44
from clonalframeml.
Hi Mel,
I had to make a couple of changes to your files to get ClonalFrameML to run on
them:
1) removed the internal node names in newick file
2) replaced all ambiguous characters in the fasta file (eg Y, R, etc) with N
3) used unix style line ends in both files
Cf attached for updated file, and it is now working fine on my side.
Best wishes,
Xavier
Original comment by [email protected]
on 13 Apr 2015 at 2:08
- Changed state: Done
Attachments:
from clonalframeml.
Excellent - I'll reformat my files like this for future runs.
thank you!
Mel
Original comment by [email protected]
on 13 Apr 2015 at 3:28
from clonalframeml.
Related Issues (20)
- Is it better to order genes by the reference genome for a xmfa file ??? HOT 2
- std::bad_alloc problem HOT 1
- Are there any detailed description of the output pdf from cfml_results.R? HOT 1
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- High recombination sequence detection HOT 3
- Inquiry on difference of Recombination Visualization between cfml_results.R and Phandango HOT 1
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- Can I use SNP multiple sequence alignment matrix and a tree build based on it as inputs? HOT 5
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- option -fasta_file_list true? HOT 1
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