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I got the foolowing error messages for about 1/3 of my single cell wgs after running latest scansnv as of today (12/6/19). Any ideas? For those cells with errors in the log, some produced file somati…
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I've been testing these on the Amish cohort. I have never successfully run it on the full sample set because once I get to about 6 hours computation time on a $60/hour I get cagey about the costs I'm …
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Need to discuss what all we want to add for version 0.3.0
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Hello Dr. Eggertsson,
First of all thank you for this very useful software.
As I was looking for a way to have each structural variant mentioned only once in my vcf file I saw that I should use …
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In the `cpd1` method, an attempt is made to recognize a headword W whose key2 form is `X-Y`.
This requires that the first part, `X`, be the _parent_ P of W.
The change made is that now `X` can be o…
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Hi Peter,
I noticed that cs_log10bf can sometimes have inf in the values. Would be good to reset it to data type maximum.
Best
Jerome
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While running "sos run GWAS_QC.ipynb king --cwd output/ --genoFile ZOD14598_AD_GRM_WGS_2021-04-29_chr20.recalibrated_variants.leftnorm.filtered.bed --name test --keep-samples sampleSheetAfterQC.filter…
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Hi
First of all, thanks for developing TRTools! I have a question regarding imputed STR input files.
I have a Beagle (v5.4) imputed VCF file that looks like below:
>##fileformat=VCFv4.2
##FI…
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I have tried the software combination “Coccinelle 1.0.7-00167-g5995403a (OCaml 4.07.1)” out again for a analysis by a tiny SmPL script on two source files.
* show_checks_after_strdup1.cocci:
```…
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Hello,
I've run into the below error while running DBGWAS. I've skipped step 1 in this case, as there were memory issues that have have been negated by splitting the job into its individual steps.…