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Lasso regression and cross-validation on RNA seq dataset
Answer: Lasso regression and cross-validation on RNA seq dataset
A: Is it possible to run haplotypecaller in gnu parallel ?
Is it possible to run haplotypecaller in gnu parallel ?
A: Identifying De Novo Mutations from vcf files
Answer: Lasso regression and cross-validation on RNA seq dataset
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Recent Replies
Comment: VCF file format for VCFTOOLs by iraun ★ 4.3k
Have you tried [FixVcfHeader][1] yo try to sanity check the VCFs? [1]: https://gatk.broadinstitute.org/hc/en-us/articles/360036882511-F…
Comment: R: problem with running time-series analysis software: Mfuzz by Kevin Blighe 81k
Cross-posted: https://support.bioconductor.org/p/9144396/
Answer: Lasso regression and cross-validation on RNA seq dataset by Mensur Dlakic ★ 18k
It is not clear whether you have 192 datasets or 192 features in some undefined number of datasets, but either way cross validation is a sm…
Comment: SARS-CoV-2 lineages complete reference genomes by GenoMax 115k
I don't know if the following two resources are going to provide `reference` genomes. You may have to go to GSAID for that.
Answer: SARS-CoV-2 lineages complete reference genomes by GenoMax 115k
From EBI: https://www.covid19dataportal.org/sequences?crossReferencesOption=all ![EBI][1] [1]: /media/images/04dd9b11-77a8-4327-8…
Answer: Software to draw protein domains of proteins by cmdcolin ★ 2.1k
tools mentioned by other users are great, a couple more tools here https://cmdcolin.github.io/awesome-genome-visualization/?latest=true&tag…
Answer: SARS-CoV-2 lineages complete reference genomes by GenoMax 115k
At [**NCBI SARS-CoV-2**][1] resource page. Be sure to switch to `Nucleotide` tab and then click on pango lineage search. ![Pango][2] …
Answer: comparisons between 2 ChIP-seq datasets by jared.andrews07 ★ 13k
Honestly, I'd just eyeball the tracks in IGV. It's usually pretty apparent. If you want more objective measures, you could look at total…
Comment: data correaltion by Jeremy ▴ 130
FYI the cor.test() function will display a p-value in addition to the correlation coefficient.
Comment: Inflation in Imputed data by desicasares@gmail.com ▴ 10
Thank you for your answer...the populations I am using are Spanish, North European and Italian individuals. In the case of the Italians t…
Comment: MAF in R by malgorzata.sobczak07 • 0
You're the best! Thanks! :)
Comment: Help with kallisto-bustools: how to interpret the inspect.json output file by dsull ★ 3.0k
Correct, which is why you should load your output into R or python and filter your cells (i.e. do the "knee plot"). See the kallisto | bust…
Answer: MAF in R by Ram 36k
You can use `HardyWeinberg::maf` to calculate MAF from a vector of frequencies. You can create this vector of HOM/HET/HOM-ALT frequencies u…
Comment: MAF in R by malgorzata.sobczak07 • 0
Yeah, sorry :)
Comment: MAF in R by Ram 36k
Your code won't work. You'll need to quote the allele strings
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