Bioconductor Indel

Showing : indel • reset

votes

replies

1.7k

views

PureCN indel somatic germline

updated 8.5 years ago by markus.riester ▴ 130 • written 8.5 years ago by pathkim • 0

vote

replies

1.5k

views

snv granges genomicranges variantannotation indel

updated 9.3 years ago by Michael Lawrence ★ 11k • written 9.3 years ago by addyS • 0

votes

1.2k

views

pairwisealignment indel

updated 9.4 years ago by Hervé Pagès 16k • written 9.4 years ago by oliwindram ▴ 10

votes

replies

2.4k

views

indel customprodb fasta variantannotation

updated 10.4 years ago by xiaojing.wang ▴ 50 • written 10.4 years ago by kristenbeck527 • 0

vote

replies

1.7k

views

indel sequencing alignment

10.6 years ago Merienne Nicolas ▴ 120

votes

replies

1.6k

views

rnaseq subjunc indel

updated 11.1 years ago by Wei Shi ★ 3.6k • written 11.1 years ago by daniel.silvestre ▴ 100

votes

replies

4.4k

views

bam indel genomicalignments biostrings

updated 11.1 years ago by Nathaniel Hayden ▴ 180 • written 11.1 years ago by Stefanie Tauber ▴ 40

7 results • Page 1 of 1

Recent ...

Replies

Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150

Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?

Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k

BTW, I tested with no issue on MacOS ARM on our previous github issue.

Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k

The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…

Answer: PTM analysis in LIMPA by Gordon Smyth 53k

For PTM analysis, the usual quantification command dpcQuant() is replaced by dpcImpute(). Otherwise the limpa pipeline is the same as for a…

Answer: problem reading bam files into nucleR by James W. MacDonald 68k

The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…

Votes

C: DESeq2 Following RSEM

Upcoming Ensembl API and data access changes - new blog post available

Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?

Answer: Large logFC but somewhat high FDR

Comment: upstream git branches of bioc-release

Awards • All