Showing : copy number • reset
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cn.MOPS output - mean/median of what?
cn.MOPS CNV copy number
4.8 years ago liorglic ▴ 10
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1.7k
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how to analyze CNV data
copy number
7.5 years ago mms140130 • 0
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874
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How to combine CGHcall objects
cghcall r cgh copy number
7.6 years ago kitcurtius • 0
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1
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1.4k
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Batch Correction and Normalization for champ.CNA
bioconductor ChAMP copy number batch effect normalization
updated 7.8 years ago by ▴ 10 • written 7.8 years ago by • 0
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1.1k
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champ.CNA error (Error in sort(abs(diff(genomdat)))[1:n.keep])
ChAMP champ copy number
7.9 years ago apmishra • 0
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9
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2.8k
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Calling amplifications and deletions from CopywriteR output
CopywriteR copy number
updated 8.8 years ago by ▴ 170 • written 8.9 years ago by • 0
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Why are the raw copy numbers maxed at 5 and minned at 0 ?
crlmm copy number
9.7 years ago kforner • 0
7 results • Page 1 of 1
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Comment: Cross-validation with multiple control subgroups in limma by Ali Barry ▴ 40
Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …
Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k
limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k
Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…
Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60
Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k
For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…
Votes
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
A: Expected counts from RSEM in DESeq2
A: Using RSEM reads for DESeq2
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