0
votes
3
replies
2.2k
views
annotation in Ensembl using biomart
updated 15.8 years ago by ★ 13k • written 15.8 years ago by ▴ 190
0
votes
0
replies
1.5k
views
Computational Biology Positions at EMBL (Heidelberg)
Sequencing Genetics genomes Sequencing Genetics genomes
15.8 years ago Wolfgang Huber ★ 13k
0
votes
4
replies
1.9k
views
fast iterator over DNAString's?
updated 15.8 years ago by ▴ 970 • written 15.8 years ago by ★ 1.1k
0
votes
1
reply
679
views
Filter over group averages
genefilter genefilter
updated 15.8 years ago by ★ 13k • written 15.8 years ago by ▴ 220
3
votes
2
replies
4.2k
views
Limma and logistic regression
Microarray Cancer limma Microarray Cancer limma
updated 15.8 years ago by ▴ 340 • written 15.8 years ago by ★ 1.9k
0
votes
1
reply
1.1k
views
clusterStab using a correlation distance
Microarray Cancer clusterStab Microarray Cancer clusterStab
updated 15.8 years ago by 68k • written 15.8 years ago by ★ 1.9k
0
votes
3
replies
1.5k
views
Reg: normalization of ArrayExpress data
Microarray Normalization GO ArrayExpress Microarray Normalization GO ArrayExpress
15.8 years ago Rohit Farmer ▴ 170
0
votes
0
replies
960
views
Limma-Contrasts-Question
limma limma
15.8 years ago Biju Joseph ▴ 30
0
votes
1
reply
837
views
can't use weights in single channel analysis?
Normalization GO Normalization GO
updated 15.8 years ago by 53k • written 15.8 years ago by ★ 2.0k
0
votes
1
reply
1.1k
views
intersection between genes and pathways
Pathways Pathways
updated 15.8 years ago by ▴ 30 • written 15.8 years ago by ▴ 420
0
votes
2
replies
1.7k
views
unable to load rtracklayer after install Iranges 1.5.56
updated 15.8 years ago by ★ 1.6k • written 15.8 years ago by ▴ 220
0
votes
1
reply
893
views
regarding making of probe package
probe probe
15.8 years ago sneha patil ▴ 220
0
votes
0
replies
810
views
BioC 2.6 New Package Submission Deadline - 3/31/10
15.8 years ago Patrick Aboyoun ★ 1.6k
0
votes
0
replies
848
views
March-April 2010*** R / S+ Essentials and Advanced Courses*** by XLSolutions Corp in San Francisco and other USA cities
15.8 years ago sue@xlsolutions-corp.com ▴ 570
0
votes
7
replies
2.0k
views
[Bioc-sig-seq] ChIPpeakAnno annotatePeakInBatch function
Annotation GO BSgenome BSgenome ChIPpeakAnno Annotation GO BSgenome BSgenome ChIPpeakAnno
updated 15.8 years ago by ▴ 310 • written 15.8 years ago by ★ 4.3k
0
votes
1
reply
1.4k
views
P-values to Z-scores
updated 15.8 years ago by ▴ 90 • written 15.8 years ago by ★ 1.3k
0
votes
0
replies
1.4k
views
Ensembl mart release 57: Useful information
SNP GO Homo sapiens zebrafish SNP GO Homo sapiens zebrafish
15.8 years ago Rhoda Kinsella ▴ 660
0
votes
0
replies
757
views
question about forgeBSgenomeDataPkg function
Cancer BSgenome BSgenome IRanges Cancer BSgenome BSgenome IRanges
15.8 years ago Hervé Pagès 16k
0
votes
0
replies
846
views
A question about org.Hs.egMAPCOUNTS
GO Cancer GO Cancer
15.8 years ago Hervé Pagès 16k
0
votes
1
reply
993
views
Rintact equivalent in BioC2.6?
Annotation Annotation
updated 15.8 years ago by ▴ 340 • written 15.8 years ago by ▴ 270
0
votes
0
replies
1.2k
views
Loop design - biological, technical replication
limma maanova limma maanova
15.8 years ago boczniak767 ▴ 740
0
votes
1
reply
4.0k
views
read.DNAStringSet
Biostrings Biostrings
updated 15.8 years ago by ★ 1.7k • written 15.8 years ago by ▴ 60
0
votes
0
replies
881
views
Call for papers: BCBGC-10, USA, July 2010
15.8 years ago John Edward ▴ 80
0
votes
6
replies
1.3k
views
xps import data derived from different batches
15.8 years ago Steve Shen ▴ 330
0
votes
7
replies
1.6k
views
where to download 'probeset.cvs' file for creating scheme file
affy affy
updated 15.8 years ago by ★ 3.9k • written 15.8 years ago by ▴ 330
0
votes
2
replies
1.8k
views
chip-seq data analysis
Transcription ChIPSeq Alignment chipseq Transcription ChIPSeq Alignment chipseq
updated 15.8 years ago by 21k • written 15.8 years ago by ▴ 60
0
votes
4
replies
2.2k
views
KEGGgraph fails on a KEGG XML file
KEGGgraph KEGGgraph
updated 15.8 years ago by ▴ 340 • written 15.8 years ago by ▴ 120
0
votes
4
replies
1.9k
views
Problem with xps package installation on Mac platform
xps xps
updated 15.8 years ago by ▴ 50 • written 15.8 years ago by ★ 3.9k
0
votes
1
reply
1.2k
views
Cosmo Background model
probe cosmo probe cosmo
15.8 years ago Prashantha Hebbar ▴ 260
0
votes
2
replies
1.2k
views
Loop design - biological, technical replication and contrasts
limma limma
updated 15.8 years ago by ▴ 740 • written 15.8 years ago by 53k
0
votes
0
replies
762
views
Cosmo background model
probe cosmo probe cosmo
15.8 years ago Prashantha Hebbar ▴ 260
0
votes
1
reply
955
views
rtrackalyer too slow?
rtracklayer rtracklayer
updated 15.8 years ago by ★ 11k • written 15.8 years ago by ▴ 350
0
votes
1
reply
1.2k
views
IRanges RangedData - possible bug?
Cancer Cancer
updated 15.8 years ago by ★ 1.6k • written 15.8 years ago by ▴ 740
0
votes
1
reply
998
views
Protein Codes to Protein Names
updated 15.8 years ago by ▴ 370 • written 15.8 years ago by ▴ 540
0
votes
4
replies
1.6k
views
affyPara: background correction & normalization only?
Preprocessing affy affyPara Preprocessing affy affyPara
updated 15.8 years ago by ▴ 380 • written 15.8 years ago by ▴ 30
0
votes
8
replies
2.3k
views
chip-chip data
updated 15.8 years ago by ▴ 410 • written 15.8 years ago by ▴ 380
0
votes
1
reply
1.5k
views
hgu133a : probe ids to gene symbols
probe probe
updated 15.8 years ago by 21k • written 15.8 years ago by ★ 1.1k
0
votes
2
replies
1.4k
views
retrieveGenomicFeatureAnnotation.R file supplied with Ringo
biomaRt Ringo biomaRt Ringo
updated 15.8 years ago by ▴ 450 • written 15.8 years ago by ★ 1.3k
0
votes
1
reply
981
views
Xlaevis probe sequence file for gcRMA not found.
xenopuslaevis probe gcrma xenopuslaevis probe gcrma
updated 15.8 years ago by 68k • written 15.8 years ago by ▴ 20
0
votes
3
replies
3.0k
views
trouble using help() after loading IRanges and [tcl] grab failed and possible tcltk problem
GO IRanges GO IRanges
updated 15.8 years ago by 16k • written 15.8 years ago by ▴ 350
0
votes
4
replies
1.3k
views
Using annotation maps as environments in packages
Annotation mouse430a2 Annotation mouse430a2
updated 15.8 years ago by 16k • written 15.8 years ago by ▴ 40
0
votes
0
replies
843
views
experience with rankproduct vs. limma - combining results
15.8 years ago Hildebrand, Georg ▴ 30
0
votes
2
replies
1.5k
views
ensembl annotation coordinate did not match that from UCSC genome browser using ucscTableQuery
updated 15.8 years ago by ★ 13k • written 15.8 years ago by ▴ 220
0
votes
1
reply
1.2k
views
R package for analyzing MS/MS spectra
updated 15.8 years ago by ▴ 260 • written 15.8 years ago by ▴ 340
0
votes
3
replies
1.6k
views
PCA or concordance
Proteomics Proteomics
updated 15.8 years ago by 21k • written 15.8 years ago by ▴ 80
0
votes
1
reply
1.0k
views
R / R+ Webminar *** R-PLUS Rocks: Interactive, Comprehensible and Highly Visual. March 12th @ 12PM ET (USA Time)
updated 15.8 years ago by ▴ 30 • written 15.8 years ago by ▴ 570
0
votes
0
replies
1.5k
views
mistmatch in GO terms between topGO_1.14.0 and org.Mm.eg.db_2.3.6
Annotation GO Mus musculus PROcess topGO Annotation GO Mus musculus PROcess topGO
15.8 years ago Dick Beyer ★ 1.4k
0
votes
3
replies
1.9k
views
GEOquery not working, NCBI changes?
GEOquery GEOquery
updated 15.8 years ago by 21k • written 15.8 years ago by ▴ 110
0
votes
2
replies
1.7k
views
mistmatch in GO terms between topGO_1.14.0 and org.Mm.eg.db_2.3.6
GO Mus musculus PROcess topGO GO Mus musculus PROcess topGO
updated 15.8 years ago by 21k • written 15.8 years ago by ★ 1.4k
0
votes
0
replies
897
views
Help on Cosmo back ground model
probe cosmo probe cosmo
15.8 years ago Prashantha Hebbar ▴ 260
46,694 results • Page 679 of 934
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Answer: NUPOP usage by shepherl 4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
Comment: How can I correctly use phyloseq with Docker? by fnfgame • 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
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…
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
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