Bioconductor DNA

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272

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DNA repeats

8 months ago me-nobody • 0

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548

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TFBSTools DNASeqData readFASTA DNA RStudio

updated 23 months ago by James W. MacDonald 63k • written 23 months ago by HELEN • 0

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2.1k

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biostrings mask repeatmasker DNA

updated 2.7 years ago by ivantsers • 0 • written 5.9 years ago by beausoleilmo • 0

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839

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software codon usage bias dna

updated 3.8 years ago by anamaria ▴ 10 • written 3.8 years ago by jol.espinoz ▴ 40

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475

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DNA alphabet

updated 4.6 years ago by James W. MacDonald 63k • written 4.6 years ago by fjia304 • 0

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1.5k

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decipher DNA biostrings

updated 5.8 years ago by Erik Wright ▴ 150 • written 5.8 years ago by reubenmcgregor88 • 0

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1.2k

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ABI sequence DNA melting curve

updated 8.3 years ago by Hervé Pagès 16k • written 8.3 years ago by Prasanth ▴ 20

7 results • Page 1 of 1

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Answer: Is SeqSQC compatible with hg38? by James W. MacDonald 63k

I'll answer your question with a question. Is there any reason to believe that things like IBD or PCA or Sex checks would be dependent on t…

Comment: using featureCounts (Subread) to count only spliced reads per gene - behavior of by Gregory • 0

Thanks for the prompt response, Gordon. I'm looking for count at the gene level - the gene id is the meta feature, so one row per gene in …

Comment: DiffBind handling of replicates and consensus by Rory Stark ★ 5.0k

You may want to try different values for the `normalize` parameter: dbObj <- dba.normalize(DBA = dbObj, library = "RiP", normalize=DBA…

Comment: DiffBind: dba.plotProfile(profiles) by Rory Stark ★ 5.0k

Yes, setting `raster_quality` down is a good way to address this issue. I've taken to using `raster_quality=1` in general as I think the pl…

Comment: DiffBind: dba.plotProfile(profiles) by Dorien ▴ 10

Not really an answer as I don't know really know why , but I also had the same issue and may have found a workaround ! If I set maxSites > …

Votes

Answer: How do I merge a list of GRanges?

Comment: biomaRt code/getBM function no longer importing 'coding' sequence via seqType ar

Comment: DiffBind: dba.plotProfile(profiles)

Answer: DiffBind - how to prep the sample matrix when multiple bam files are used by MAC

Comment: DiffBind: dba.plotProfile(profiles)

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