Dr N Ch
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Votes on activity by Dr N Ch Sort by votes-
Genevieve Brandt command used: /home/Applications/gatk-4.2.0.0/gatk GermlineCNVCaller \--run-mode COHORT \-L /home/Projects/CNV/5.cohort.interval_list \-I /home/Projects/CNV/80.tsv -I /home/Pro...
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Thank u..
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Genevieve Brandt Hi... Should we run "GermlineCNVCaller --run-mode COHORT" step first... to make work GermlineCNVCaller --run-mode CASE? 1. Initially i tried running case step only and it exited w...
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Hi, @preprocessintervals - A USER ERROR has occurred: Badly formed genome unclippedLoc: Query interval "home/Reference_Sequences/xxxx.bed" is not valid for this input. I am using the fasta seque...
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CONTIG_NAME PLOIDY_PRIOR_0 PLOIDY_PRIOR_1 PLOIDY_PRIOR_2 PLOIDY_PRIOR_3chr1 0.01 0.01 0.97 0.01chr2 0.01 0.01 0.97 0.01chr3 0.01 0.01 0.97 0.01chr4 0.01 0.01 0.97 0.01chr5 0.01 0.01 0.97 0.01chr6 0...
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Docker image... no clue what it it.. will ry out...any help file to use the code.
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Muhammad Shoaib Akhtar: Yes I am working on human genome! how can in make changes as per my sample sets.
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The model has been created with "DetermineGermlineContigPloidy" and the command successfully worked... the next step is to call GermlineCNVCaller : when i tried to execute it... it is throwing up t...
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Thank you Lithium22! Mine is a mixed population and yes humans! Can u let me know how are the proportions adjusted!
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Hi, Thank you for the response... I am currently following the protocol as in the link shared above.. I can get hold of 100 samples... but now i am trying with 5 samples... to setup the steps .. I ...