Bioconductor TxFeatures

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crash SGSeq TxDb makeTxDbFromBiomart TxFeatures

updated 8.1 years ago by Leonard Goldstein ▴ 260 • written 8.1 years ago by oolongoni ▴ 40

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Answer: Using DESeq2 for age prediction by ATpoint ★ 5.0k

The package has no such inbuilt function but you are free to use the vst (or any normalized) counts to train a regression model or classifi…

Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by James W. MacDonald 68k

Aaron already answered your question. If you have an HDF5 file, it will be read in as a `TENxMatrix` object, which isn't actually read in -…

Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by dan.gatti • 0

Very strange. We have the same package versions. I tried adding the mtx.class, type, and delayed arguments, but it's still making the coun…

Comment: DESeq2 for candidate gene analysis by piffelpaff ▴ 20

thank you so much for answering Dr. Love!

Answer: DESeq2 for candidate gene analysis by Michael Love 43k

Your plan 1 is reasonable. Run DESeq2 on the whole dataset to obtain size factors and moderated dispersion estimates and then extract the u…

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Answer: DESeq2 for candidate gene analysis

DESeq2 for candidate gene analysis

Answer: DESeq2 for candidate gene analysis

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