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Comment: Input arguments for AddOrReplaceReadGroups (Picard) from fastq
Answer: Input arguments for AddOrReplaceReadGroups (Picard) from fastq
Input arguments for AddOrReplaceReadGroups (Picard) from fastq
Comment: Variant calling of GBS data
Comment: Flow Cytometry Data Analysis by Seurat
C: Which human reference genome should I use?
Which human reference genome should I use?
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Recent Replies
Comment: Hybrid assembly Pacbio- Nanopore
by
Lissa Cruz Saavedra
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Hi Thanks for your answer. I think I have very good coverage. My genome size is 48M. I also have data from poreC and illumina, the last on…
Comment: Variant calling of GBS data
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analyst
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Anyone please suggest which variant caller can be the best choice for variant calling of GBS data for polyploid plant.
Comment: Variant calling of GBS data
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analyst
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Does GATK Haplotypecaller take care of ploidy because few plants are polyploid?
Comment: Looking for RPIP Illumina kit probe sequences
by
GenoMax
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More than likely they will only be available in the accompanying analysis app (Explify RPIP) in BaseSpace. Check with Illumina tech support…
Comment: F*up Night style events for Bioinformatics ? Comment if you're interested!
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Mensur Dlakic
★ 26k
Pretty sure I have done it, but can't remember the details. You know that thing about blocking out traumatic events ...
Comment: Number of CPUs to use by DRAP for transcriptomic assmbly
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GenoMax
140k
> I have just noticed in the documentation that there is no argument to specify the number of CPUs to use for calculations. If the program…
Comment: Low number of both surviving reads after trimming
by
GenoMax
140k
Do you have a plot of adapter contamination for this data from FastQC? If you have a lot of adapter dimers, short inserts i.e. bad quality…
Comment: struggle to get fasta files from ucsc goldenPath
by
GenoMax
140k
Looks like those appear to be "polycomb associated non-coding RNA". You probably know what they are. https://www.ncbi.nlm.nih.gov/nuccore/…
Comment: Parsing fasta file by coordinates
by
GenoMax
140k
> sequences that are from the same region from those that aren't. could refer to sequence composition and that is the reason we were sugge…
Comment: Low number of both surviving reads after trimming
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Ram
43k
Please edit your post and add the code parts again, this time use the `101010` code button and NOT the double quote button. The latter is u…
Answer: F*up Night style events for Bioinformatics ? Comment if you're interested!
by
Pierre Lindenbaum
160k
... reminds me [https://twitter.com/yokofakun/status/1267877851795259397][1] ( my twitter account is now private) ![ops][2] [1]: https…
Comment: Flow Cytometry Data Analysis by Seurat
by
Ram
43k
Why did you delete this post, https://www.biostars.org/u/142036/ ?
Comment: Volcano Plot Output Inquiry: Graphs Facing Down
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dariober
14k
Perhaps more concerning is why you have features (genes?) with small pvalue but fold-change very close to zero. It's also unusual that ther…
Comment: Gene reads all zero for each sample
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DYLAN NICO
• 0
Thank you for the suggestions. Unfortunately I cannot add any details for lack of information. But I will try using a different alignment a…
Comment: struggle to get fasta files from ucsc goldenPath
by
Lila M
★ 1.2k
They are +ve and -ve strands, but identical two by two ... I can filter that out later on. This is probably a very naive question, but what…
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