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Hi,
We tested +-100 RNA exome sample data with interesting output, however, also included are normal lung tissues that get an ouptut of +-35% tumor fraction.
Have you tested this and if yes, did you…
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Hi SpecHLA developers,
Your tool has been incredibly easy to set up and use so far. I just wanted a clarification on your cal.hla.copy.pl function.
In your description you had --ploidy as "the p…
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Hello!
I am analysing WES data (expected coverage 200x) derived from archival FFPE samples. Some samples have a matched control (peritumoral tissue) some are tumor-only. A group of blood samples fr…
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I will continue the discussion here, until or if @keean can get Github to restore the thread. Luckily I still have a copy of the deleted #35 thread loaded, so I can copy and paste from it. If the orig…
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Create table for words and nouns. Query it when generating usernames
Reference: https://stackoverflow.com/questions/8674718/best-way-to-select-random-rows-postgresql
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Hello Team,
I am trying to use PureCN with a matched tumor and normal samples, however, it's throwing an error. I am attaching the log file here. I have used CNVkit for segmentation and Mutect2 (G…
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I came across an error when trying to compute purity and ploidy on my sample. ASCAT could not find an optimal ploidy and purity value for sample BEL_20C. I doubt it is because there is no dominating t…
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We have a number of notebooks exploring transcriptomic analyses with high purity tumors. These are often in whatever module the analysis is performed in. Organizing them in this manner in the code bas…
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貼吧活動：(請查閱 [SARS-CoV-2 Timeline by 2020.02.21](https://github.com/agorahub/_meta/blob/agoran/theagora/sari/Memorandum_2020-02-21_SARS-CoV-2-Timeline_Nathan.pdf?raw=true), by Nathan :cloud: )
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Hi, thank you for developing a useful tool.
I'm interested in the TmS you suggested using bulk whole-exome and RNA sequencing.
I have some questions during the tutorial to reproduce the results.
…