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gstecher / CloneFinderAPI

API for the Clone Finder application
MIT License
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tumor genotype that was decomposed was hit in different tumor: failed decomposition #4

Open tamaraprieto opened 4 years ago

tamaraprieto commented 4 years ago

Hi,

I was running the program using this command: python clonefinder.py snv ${WORKDIR}/Input2.txt

And the input file looks like this (but it has and 1815 sites and 283 samples in total):

SNVID   Wild    Mut ASCE171909F:ref ASCE171909F:alt ASCE171910F:ref ASCE171910F:alt ASCE171911F:ref ASCE171911F:alt
S1  T   C   1382    0   741 0   734 0
S2  A   G   1246    0   690 0   636 0
S3  T   C   1390    0   739 0   731 0
S4  G   A   1231    0   666 0   649 0
S5  T   C   1212    0   665 0   645 0
S6  C   T   1232    0   663 0   640 0
S7  A   C   1208    0   652 0   627 0
S8  G   T   1179    0   641 0   599 0
S9  T   C   1177    0   638 0   617 0

I am getting the following error, the programs fails but I get the output anyway:

tumor genotype that was decomposed was hit in different tumor: failed decomposition Run time: 0:29:27.664878

Should I worry about it? Thanks in advance!

tamaraprieto commented 4 years ago

I have taken a closer look at the results and I guess the program has not finished properly as the maximum proportion of clones assigned to each sample does not reach 1. In fact, it is close to 0.66 in all the samples. Do you think it may be something related to my input? Thanks

SayakaMiura commented 3 years ago

Sorry for very late response. You do not need to worry about the message. Results should be fine. The total clone frequencies may not become 1, because (1-Total)=Normal cell frequency.