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When “Cancelled” is chosen, all fields are locked except for “Mito Haplogroup” and “MCC Date”. These could be locked as well.
![CoRA_DNA module issue](https://user-images.githubusercontent.com/735047…
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Need to insert an additional table to the database with haplogroup-specific allele frequencies, and add these data to the annotations provided.
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I was wondering what kind of output difference should I see if I use a bam vs fastq as input. I tried using bam and fastq for the same sample and I see more annonation files for the bam output as comp…
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Hi,
There is a bug in the new version's output:
"Sample" "Contamination Status" "Overall Homoplasmies" "Overall Heteroplasmies" "Sample Coverage" "Major Haplogroup" "Major Haplogroup Quality" "Min…
gevro updated
4 years ago
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Hi,
A few issues with the output of the new version.
1) The word "amount" is still used and is unclear what this means.
2) Major Heteroplasmy Level and Minor Heteroplasmy Level are now empty. Thi…
gevro updated
4 years ago
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Hi, there:
Deeply appreciate again that you guys have developed a tremendously useful and powerful tool!
I now got a few Philosophical and Scientific questions. Hope some of you can kindly she…
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Hi, I have a sample for which the Contamination = YES, but the MeanHetLevelMinor = 0. This should not be possible, because by definition, if there is a minor haplogroup, then there should be some leve…
gevro updated
4 years ago
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The divide by zero can happen here:
https://github.com/genepi/haplocheck/blob/master/src/main/java/genepi/haplocheck/steps/contamination/ContaminationDetection.java#L82
When the haplogroup of th…
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Hi. I ran a standard haplocheck analysis and the report said Major Level and Minor Level is 0%, with No contamination.
Here is the contamination.txt file:
"SampleID" "Contamination" "Sampl…
gevro updated
4 years ago
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It looks like that the XML file is not formatted correctly. For instance,
* Given the following, "H2a2a2" is at the same depth level as "H2a2a", while the former should be a sub-clade of the latter…