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COVID-19 fastv Tutorial SARS-CoV-2

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SARS-CoV-2 COVID-19 viruses fastv Tutorial

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2 results • Page 1 of 1

Recent Votes

Comment: Keep values from VCF file into Ensembl VEP annotation

Answer: Creating reference genome for mapping and then selecting

Comment: Creating reference genome for mapping and then selecting

Answer: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens

Comment: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens

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Comment: Keep values from VCF file into Ensembl VEP annotation by dare_devil ★ 1.4k

it would be great and helpful to others if you share your answer here.

Answer: Expression of gene of interest across conditions in single-cell data by jared.andrews07 9.1k

Take a look at [dittoSeq](http://www.bioconductor.org/packages/release/bioc/vignettes/dittoSeq/inst/doc/dittoSeq.html) for viz options - it…

Comment: Extracting only tumor samples from Single cell RNASeq by jared.andrews07 9.1k

You need pre-defined variants for Vartrix. Typically it's used in conjuction with WGS/WES from bulk tissue to look for clonal variants in d…

Comment: Cell composition in each condition of single cell data by paria.alipour ▴ 20

Oh, I'm sorry. I already posted it in here the https://www.biostars.org/p/457243/#9464486. I've added the images

Comment: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens by Quanyou • 0

This seems OK when one gene generates only one transcirpt. But when one gene has multiple transcripts, these code would return a table wher…

Comment: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens by Quanyou • 0

This seems feasible. But I want to convert tens of thousands of transcript IDs. Could you tell me how can I make it through sequene search?

Answer: bbmap, mapq and uniquelly mapped reads filtering by GenoMax 99k

Many threads exist that show how to extract uniquely mapped reads. Here are a couple of examples:<br> https://www.biostars.org/p/276216/#27…

Comment: Cell composition in each condition of single cell data by rpolicastro 5.1k

The images seem to be missing from your post

Comment: Limma experiment design and making contrasts by kra277 • 0

Thank you very much for this. Much appreciated.

Comment: Limma experiment design and making contrasts by Kevin Blighe 72k

Hi, these follow the same principles as formulae used in regression modelling, so, you may want to focus on that (when searching). What lim…

Comment: Limma experiment design and making contrasts by kra277 • 0

That is very insightful. Thank you very much for the answer. Also, if I may ask, could you please point me to the articles for understandin…

Comment: Keep values from VCF file into Ensembl VEP annotation by brunobsouzaa ▴ 520

Thanks Man... I've wroten a simple awk command for this task! Everything is working fine.

Comment: Raw read processing using trimmomatic by boczniak767 ▴ 740

Do you have exact command used by the author? I guess that not all details was presented in the paper. You can always ask the corresponding…

Comment: should stop codon be counted as part of CDS by sullis02 • 0

Your github page appears to live here now https://github.com/NBISweden/GAAS/blob/master/annotation/knowledge/gxf.md

Comment: How do I compare degree and betweenness centrality for different PPI networks? by Istvan Albert 87k

I am not all that knowledgeable of Cytoscapes features and scripting capabilities, but if it does not support that operation you can expo…

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