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Answer: Clarification regarding SAM flags "mate reverse strand" (flag 16/0x10) and "read
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Answer: imputation through beagle
Answer: imputation through beagle
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Recent Replies
Answer: Clarification regarding SAM flags "mate reverse strand" (flag 16/0x10) and "read
by
kalavattam
▴ 190
> My question is this: "mate reverse strand" (flag 16/0x10) or "read reverse strand" (flag 32/0x20) do not directly relate to the strandedn…
Answer: How to interpret infinite odds ratio?
by
bhumm
▴ 140
As you stated, your problem is likely division by 0. See this [Cross-Validated][1] post that seems to be very similar to your problem. In …
Comment: Duplicated sequence samtools
by
GenoMax
142k
Consider using SLURM job arrays if you want to use a `for` loop inside a single SLURM job: https://hpc.nmsu.edu/discovery/slurm/job-arrays/
Answer: Duplicated sequence samtools
by
Pierre Lindenbaum
161k
the sequence c_000007023807_aloha2_low_cov is duplicated in the reference grep c_000007023807_aloha2_low_cov path/to/reference.fasta
Comment: imputation through beagle
by
analyst
▴ 50
Thank you so much dthorbur. Yes I am new to imputation analysis. I will follow your kind suggestions. Thanks again!
Answer: Benchmarking RNASeq Variant Calling Pipeline (Short Reads)
by
lagartija
▴ 160
I don't know but another way of doing it would be to combine different datasets of different strains that you know are clonal. Then you kno…
Comment: consensus sequence calling
by
bk11
★ 2.4k
Please check out these posts https://www.biostars.org/p/367626/
Comment: Galaxy StringTie error
by
trkfs
• 0
will do, thank you
Answer: Splitting Seurat object by sample layers
by
bk11
★ 2.4k
You can do the following- Idents(SeuratObj) <- "orig.ident" control_set <- subset(SeuratObj, idents = c("counts.control","data.…
Comment: Galaxy StringTie error
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GenoMax
142k
> I have sent a bug report to the Galaxy administrator If you have not done so please post this in Galaxy help forum for directed help: h…
Comment: 44% Successfully Assigned Fragments with featureCounts after 85% uniquely mapped
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Thind amarinder
▴ 340
Wondering, if it was total RNAseq data? or ployA
Comment: RNA seq analysis
by
Matthias Zepper
4.6k
It is still obscure to me how many different tissues you would like to include into your comparison and what your intended design is. To …
Comment: Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene pred
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Juke34
8.6k
You can get a look here https://www.biostars.org/p/9465973/
Answer: Mouse ribosome sequences in fasta format
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GenoMax
142k
A version of the mouse rDNA repeat can be found here: https://www.ncbi.nlm.nih.gov/nuccore/BK000964 Use the dropdown menu at top-left t…
Comment: Kraken2 database
by
Christopher
• 0
Hello, Mathew. Firstly, thank you for answering my question. **Sorry, what analysis are you trying to perform with these databases?** I a…
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