Bioconductor Linear models

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deseq2 design matrix multi-confounders linear models rna-seq

updated 5.1 years ago by Michael Love 43k • written 5.1 years ago by mohamedrefaat.1.1992 • 0

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1.4k

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methylation ComBat Linear models batch correction AIC

updated 5.3 years ago by Kevin Blighe ★ 4.0k • written 5.3 years ago by lucasmiranda42 • 0

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1.5k

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Limma R Linear Models

updated 6.1 years ago by Aaron Lun ★ 28k • written 6.1 years ago by christiangriffioen • 0

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1.0k

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ballgown linear models

7.0 years ago Yong Li ▴ 50

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1.6k

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microarray SVA ComBat Linear models Residuals

7.7 years ago DataFanatic ▴ 10

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Comment: Help with the code for "BiocNeighbors::generic_find_knn() function used by scran by Arctic • 0

Many thanks for the link to the C++ code. I will see if I can find someone with C++ experience to help me with the code breakdown from her…

Answer: Help with the code for "BiocNeighbors::generic_find_knn() function used by scran by Aaron Lun ★ 28k

It's calling C++ code, see the relevant function definitions on [GitHub](https://github.com/knncolle/BiocNeighbors/blob/master/src/generics…

Answer: DESeq2 by ATpoint ★ 4.8k

Time courses are often inevitable batches but you should have done the library prep at the same day, just extract RNA per day. If not then …

Comment: Package developing and interoperation with Bioconductor by slizchap • 0

Thank you so much for your answer. This was very useful, I will optimize my functions so they can handle SE objects.

Comment: Package developing and interoperation with Bioconductor by slizchap • 0

Thank you so much for your answer, very useful!

Votes

Answer: Help with the code for "BiocNeighbors::generic_find_knn() function used by scran

Is it possible to speed up VariantAnnotation's rowRanges function when converting to a dataframe?

Answer: Is it possible to speed up VariantAnnotation's rowRanges function when convertin

Comment: ComBat with repeated measures

Answer: Package developing and interoperation with Bioconductor

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