Faisal Almalki
Msc Medical Genetics, Glasgow University PhD Genetics, Leicester University Assistant professor at Taibah University
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Activity overview
Latest activity by Faisal Almalki-
Faisal Almalki commented,
This is my command: ./gatk DenoiseReadCounts -I sampleinput.tsv --annotated-intervals intervallist.cohort.gc.filtered.annotated.tsv --denoised-copy-ratios sample_0_denoised_copy_ratios.tsv But ...
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Faisal Almalki commented,
thank you Genevieve. That was helpful. One more question. I dont have tsv format for denoisedCR --denoised-copy-ratios I believe its mandatory to plot the data. I got message after running GATK st...
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Faisal Almalki created a post,
How to plot single gremlin CNV case sample against cohort mode in a figure?
AnsweredBasically I followed this tutorial for calling germline CNV from whole exome data set. https://gatk.broadinstitute.org/hc/en-us/articles/360035531152--How-to-Call-common-and-rare-germline-copy-numb...
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Faisal Almalki commented,
thank you for the script. Its really helpful
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Faisal Almalki commented,
Dear Muhammad Shoaib Akhtar I would be interested to try your bash script. I am facing the same problem.
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Faisal Almalki commented,
Thank you so much for your answer. It's really help me a lot. Best Faisal
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Faisal Almalki commented,
Thank you Genevieve. You really answered most of my questions. I really appreciated your time and effort. One last questions. Should I include control samples, which is known normal sample sequence...
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Faisal Almalki created a post,
What is Cohort mode mean in calling germline CNV from Whole Exome Sequence data?
AnsweredI have several children patients who showed similar phenotypes from consanguineous marriage. These families were WES sequenced for analysis of possible inherited mendelian disorders. They are all s...