Bioconductor Coordinate

Showing : coordinate • reset

vote

replies

1.3k

views

diffbind Rory Stark coordinate

updated 5.6 years ago by Rory Stark ★ 5.2k • written 5.7 years ago by Guandong Shang ▴ 40

votes

replies

2.2k

views

dmrcate gene symbol coordinate

7.3 years ago 574233829 • 0

votes

1.3k

views

granges coordinate genome browser

updated 9.1 years ago by Michael Lawrence ★ 11k • written 9.1 years ago by Charles Plessy ▴ 180

votes

replies

4.1k

views

r edgeR estimatedispersions coordinate

9.9 years ago pertille • 0

votes

replies

26k

views

tcga cnv gene symbol coordinate

updated 3.0 years ago by James W. MacDonald 68k • written 10.5 years ago by NS ▴ 60

5 results • Page 1 of 1

Recent ...

Replies

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…

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

Oh. ``` > z <- read10xCounts(c(tmpdir, tmpdir), mtx.class = "SVT_SparseMatrix", delayed = TRUE) > class(counts(z)) [1] "DelayedMatrix" att…

Votes

A: Multi-level experiments in Limma

Answer: Should voomWithQualityWeights still be used when the sample-specific weights var

Answer: DESeq2 for candidate gene analysis

DESeq2 for candidate gene analysis

Answer: DESeq2 for candidate gene analysis

Awards • All