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Hi ：
I am using annovarToMaf() to convert annovar result to maf file. I see source code in annovarToMaf() where 'Make final maf table':
![image](https://user-images.githubusercontent.com/3219414…
ghost updated
5 years ago
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Hi could you let me know when http://wannovar.wglab.org/ is going to be up and running again? thank you
elmav updated
5 years ago
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Is there a whole genome version of dbNSFP3.5a available for annotation using ANNOVAR?
nroak updated
5 years ago
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Hi,
It seems that there is a limitation on how many reads you can load in the html output?
A couple tries, looks like:
1. Cannot display the tumor and its matched normal reads(beneath the tumor rea…
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in cmg pipeline
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Is there any rational of how the samples are ordered in the `plotTiTv` function? And can this be selected manually?
Also, what are the bars scaled to? Looks like 100%, but some bars (I have both SN…
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- [x] FASTQC v0.11.5
- [x] Trimmomatic 0.36
- [x] BWA 0.7.15
- [x] bwa mem
- [ ] bam-readcount 0.8.0
- [x] samtools 1.7
- [ ] GATK 3.8-1-0-gf15c1c3ef
- RealignerTargetCreator
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annotate_variation.pl --downdb gnomad_genome -buildver hg38 humandb/
NOTICE: Web-based checking to see whether ANNOVAR new version is available ... Done
NOTICE: Downloading annotation database http:…
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INFO: Annovar reference files of build hg19 were given, using this build for all analysis.
INFO: Begin.
INFO: Proper directory already exists. Continue.
INFO: Proper directory already exists. Conti…