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Recent Replies
Answer: The number of variations in the pan-genome is reduced compared to the variations
by
Jordan M Eizenga
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410
If variants overlap in the genome, `vg deconstruct` will combine them into one locus with multiple alleles. If your input VCF has a lot of …
Answer: How to find node Postion and source(sample) ?
by
Jordan M Eizenga
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410
You can use `vg find -P` for this. This command is not really designed to be used frequently throughout the genome (each invocation loads t…
Comment: How Can I move the scattered dots more closer into the center of box ?
by
Brian Bushnell
19k
I would just draw them in by hand where you want them.
Comment: How to identify CG, CHG, or CHH from MeDIP data
by
Tm
★
1.1k
I know that CpG types can be identified using whole genome bisulphite data. But could it be possible using MeDIP data too?
We tried using Q…
Comment: Problematic fastq files...How can we trust them?
by
Brian Bushnell
19k
I'd have to agree there... while you can generally recover a fastq to the point that it is spec-compliant, you don't know how or why the f…
Answer: Finding human .vcf files online to download
by
cmdcolin
★
3.4k
----------
some common ones include
1000 genomes vcf (large, multi-sample) http://ftp.1000genomes.ebi.ac.uk/vol1/ftp/release/20130502/
…
Comment: GO categorization
by
m.habib
•
0
Thanks Istvan for your reply. I think these programs will do the same as Trinotate. Trinotate searches against numerous databases and gener…
Comment: scRNA-seq: Consistent low number of cells and low fraction reads across the samp
by
jv
★
1.2k
I wonder if using cell hashing, which would allow pooling of cells from multiple samples before droplet formation, could improve things her…
Comment: Where Can I Find The Basepair Positions Of Chromosome Bands?
by
Malachi Griffith
19k
And the hg38 version can be found here:
https://hgdownload.soe.ucsc.edu/goldenPath/hg38/database/cytoBand.txt.gz
And for convenience, upda…
Answer: How Can I move the scattered dots more closer into the center of box ?
by
Trivas
★
1.5k
You added a position dodge on your boxplot but not on your points.
Comment: How Can I move the scattered dots more closer into the center of box ?
by
ATpoint
78k
Please understand that biostars is not a helpdesk for trivial ggplot questions. Google it and find help on previous StackExchange sites, or…
Comment: Yes .. BBMap can do that! - Part III clumpify (mark (and dedupe) duplicates with
by
jucosie
•
0
Hello,
I am reviewing some old scripts in which I used clumpify.sh (BBMap 38.90) with the following parameters:
./clumpify.sh in1=$d…
Comment: Problematic fastq files...How can we trust them?
by
Istvan Albert
99k
perhaps ask her about the origin of the data, how was the data postprocessed
FASTQ data is a bit more resilient than other types of data a…
Answer: GO categorization
by
Istvan Albert
99k
If you have an organism that lacks the GO to gene mapping then you have to find a way to assign these terms to your genes.
Basically your …
Comment: doubt about usage of megahit
by
Istvan Albert
99k
you have not mentioned what kind of resources you have, how much data you have to process and what the expected genome/transcriptome sizes …
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