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Recent Replies
Answer: Dealing with missing (NA) values in my 450K methylation array dataset
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You could omit the NA values : `pca <- prcomp(na.omit(t(exprs(GSE65820))))`
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I imagine you can filter on things like E.C. numbers and domain names using `bash`, `awk`, `R`, or some other code.
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STARDUST
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I will try both rMATS and SUPPA for categorising changes. For the specific exons, i'm expecting the last exons should be affected. That is …
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See: https://www.elegansvariation.org/data/release/20220216
Answer: want the codes for cuffdiff , NIOSeq , bayseq to perform DEGs.
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- NOISeq <https://www.bioconductor.org/packages/release/bioc/vignettes/NOISeq/inst/doc/NOISeq.pdf>
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I think this is to be expected based a report I was able to find online
<https://uu.diva-portal.org/smash/get/diva2:1608120/FULLTEXT01.pd…
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Unless the kit directions tell you to remove remove the initial 10-15 bp you may as well leave them alone. Data should align would be my in…
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Thank you so much for your kind reply and for helping a bioinformatics beginner like me.
Can I use **bowtie2** tools for allignment and th…
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Yes, I have proceed with analysis but I wonder if it is necessary to remove the first 10 or so bp from the reads.
I have checked that NEBN…
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Did you look in the header of the provided VCF to see if any information has been encoded there (e.g. command line/options used).
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That's exactly what I've done. However the dispersion is really high (primary samples) and the total number of samples seems really low to…
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If the library was made using tagmentation then you will see that pattern.
Flag warnings on FastQC do not immediately indicate that the da…
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I suppose there are multiple? Queries via Hail are very likely run against a [Matrix Table][1], but the web application likely uses a diffe…
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> I have my own data, so I would like to try to create my own type of exome aggregation database, and the idea was to try to replicate gnom…
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