Bioconductor Tcgadownload

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GDCdow tcgabiolinks error tcgadownload download_error

updated 6.4 years ago by Tiago Chedraoui Silva ▴ 260 • written 6.4 years ago by miki716 • 0

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tcgadownload deseq2 mirna normalization

updated 6.9 years ago by Lorena Pantano ▴ 140 • written 6.9 years ago by Björn • 0

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R tcgabiolinks tcgadownload error

7.9 years ago juniuskcc • 0

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tcgabiolinks tcga tcgadownload gdcprepare gdc

updated 8.1 years ago by Tiago Chedraoui Silva ▴ 260 • written 8.3 years ago by enigmargs • 0

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tcgabiolinks tcgadownload

updated 8.5 years ago by Tiago Chedraoui Silva ▴ 260 • written 8.5 years ago by Leonardo Collado Torres ★ 1.1k

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tcgabiolinks tcgadownload

updated 4.0 years ago by H. Z. Amini ▴ 10 • written 8.8 years ago by sabarinath.chandrasekharan ▴ 10

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tcgabiolinks TCGAdownload

updated 8.8 years ago by Tiago C. Silva ▴ 270 • written 8.9 years ago by roladali ▴ 20

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tcgadownload

8.9 years ago maedakus ▴ 10

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Comment: Check removeBatchEffect effectiveness by Gordon Smyth 52k

Both of your matrices, `design_batcheffects` and `design_timepoint`, span the intercept term, which will cause a warning about NA coefficie…

Comment: DiffBind - question on the use of filtered or unfiltered input data by sloperun3az • 0

Your essay was beneficial to me, and I found it to be very useful. Thank you for writing it. You give a wealth of knowledge that is not onl…

Comment: compute_fasta_digest does not match Salmon index hash by sloperun3az • 0

The people who are reading your work are not taken into consideration, even though you appear to have a solid understanding of the subject …

Comment: parameters of filterByExpr by Paul Harrison ▴ 110

It might be worth trying limma-voom (or limma-trend) instead of a GLM based method. In our experience these are less prone to this problem.…

Comment: limma::voom vs edgeR::voomLmFit - when to use? by Gordon Smyth 52k

voomLmFit() is in edgeR instead of limma because it needs to call edgeR::glmFit() internally to determine which of the zero observations al…

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Comment: Check removeBatchEffect effectiveness

Answer: Check removeBatchEffect effectiveness

A: what should I do with many zero counts from Salmon quantification

Comment: parameters of filterByExpr

GAlignments Cigar to GRanges

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