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written 8 months ago by
sonia.olaechea • 100
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Josué Barrera • 10
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SOHAIL • 310
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written 4.1 years ago by
eyb • 180
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Giovanni M Dall'Olio ♦ 26k
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Recent Replies
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C: Adding consequences field (INFO) when using --allow_non_variant in VEP by
RamRS ♦ 25k
Your VCF should not contain all-ref positions. Ideally, VCFs only contain positions that are alte...
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C: Trimming the metagenomics data by
stuart archer • 0
In your Trimmomatic command, not sure why you escaped the colons in the ILLUMINACLIP bit (\:2\:30...
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C: Fetching Genbank Assembly IDs with protein by
anabaena • 0
So what the end game is, is to append a pandas dataframe with the Genbank Assembly ID (i.e. GCA_X...
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C: Fetching Genbank Assembly IDs with protein by
vkkodali • 1.6k
What is it that you are looking for in the end? You can search the ‘assembly’ database and fetch ...
-
C: Adding consequences field (INFO) when using --allow_non_variant in VEP by
magnolia • 0
Because I also want to see what positions are covered in the VCF and which genes are in those pos...
-
C: Fetching Genbank Assembly IDs with protein by
anabaena • 0
Alright so I am getting the WGS/contig ascencion but not the assembly ID (i.e. starts with GCA_XX...
-
A: How to assemble viral genomes when my data contains host DNA as well by
Mensur Dlakic • 3.0k
From what you describe, it seems like you have a clean co-assembly of a virus and its host. You a...
-
A: How to assemble viral genomes when my data contains host DNA as well by
metageni • 110
I agree with @colin.kern. If the host is not known, you can try to use a tool such as [Metabat][1...
-
C: Missing gene symbols in bustools output by
Barry Digby • 250
Thanks for the response Páll. I'll integrate the `py` script into my nextflow script and hopefu...
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A: How to assemble viral genomes when my data contains host DNA as well by
colin.kern • 780
If the host bacteria has a known genome assembly, you can use any short read aligner, e.g. BWA or...
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C: Modern software for whole genome alignment visualization by
rioualen • 390
Hi, any update about this? I'm also looking for a sorta genome browser to visualize whole-genome ...
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C: Survival analysis with gene expression by
Kevin Blighe ♦ 53k
These are different functions, so, you should not expect that they return the same p-values. Take...
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