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convert
•
reset
0
votes
0
replies
212
views
TFutils database
TFutils
mouse
gene
convert
11 months ago
nicocillari
• 0
2
votes
6
replies
685
views
getLDS error in scan
biomaRt
getLDS
convert
gene symbols
updated 19 months ago by
Mike Smith
★ 5.5k • written 19 months ago by
mvis1231
• 0
1
vote
4
replies
687
views
RNA-seq analysis using R
limma
rnaseq
convert
R
updated 3.5 years ago by
Gordon Smyth
45k • written 3.5 years ago by
justinkablan225
• 0
0
votes
3
replies
2.3k
views
convert affy CEL files to data.frame??
convert
convert
updated 3.7 years ago by
giulio.genovese
• 0 • written 11.3 years ago by
D M
▴ 40
1
vote
1
reply
3.2k
views
How to convert Illumina HT_12_v4 annotation
convert
R
annotation
microarray
illumina human ht-12 v4
updated 4.4 years ago by
thokall
▴ 160 • written 4.4 years ago by
p_donchev84
• 0
1
vote
7
replies
1.5k
views
Can XCMS output continuum/profile data to netCDF format?
xcms
convert
protein
updated 5.4 years ago by
Johannes Rainer
★ 1.9k • written 5.4 years ago by
ray.bacala
• 0
1
vote
3
replies
899
views
To convert MAList to ExpressionSet using R package 'convert'
convert
updated 5.5 years ago by
Gordon Smyth
45k • written 5.5 years ago by
rheupion
• 0
0
votes
5
replies
4.7k
views
How to reverse translate amino acid sequence into mammalian codon optimised cDNA
convert
translation
updated 5.6 years ago by
caroline
• 0 • written 7.5 years ago by
tomas.bjorklund
▴ 20
1
vote
1
reply
908
views
converting amino-acid one letter code into cDNA sequene
convert
aminoacid-onlettercode
cDNA
5.9 years ago
arvind90.psc
• 0
1
vote
2
replies
1.7k
views
making ExpressionSet from RGList via NChannelSet for use with 'sva'
biobase
convert
sva
ringo
arrayqualitymetrics
updated 6.2 years ago by
Gordon Smyth
45k • written 6.2 years ago by
chris.rock
• 0
1
vote
2
replies
2.5k
views
minfi, bumphunter + complex experimental design, and 3 other 450K queries
GO
convert
minfi
bumphunter
GO
convert
minfi
bumphunter
updated 6.3 years ago by
david.watson
▴ 20 • written 8.0 years ago by
Guido Hooiveld
★ 3.2k
1
vote
1
reply
1.1k
views
Error of GDS2eSet() function
convert
geoquery
error
GDS2eSet
updated 6.4 years ago by
James W. MacDonald
59k • written 6.4 years ago by
vahideh
• 0
0
votes
3
replies
1.4k
views
Minfi "mapToGenome" error when attempting to generate a genomicRatioSet
Cancer
convert
minfi
Cancer
convert
minfi
updated 6.5 years ago by
diana0690
• 0 • written 8.3 years ago by
Kasper Daniel Hansen
6.5k
0
votes
0
replies
799
views
How to convert codominant Microsatellite two column data into illumina AB format?
Microsatellite
Convert
recode
6.6 years ago
parka
• 0
0
votes
3
replies
8.9k
views
How to combine expression values of multiple probes for one gene
probe
convert
geneexpression
onechannelgui
updated 6.8 years ago by
svlachavas
▴ 780 • written 6.8 years ago by
ayanava18
▴ 10
6
votes
1
reply
2.5k
views
[ReportingTools] HTMLReport of DESeq2 results using Ensembl Gene Ids
Sequencing
Annotation
convert
biomaRt
ReportingTools
DESeq2
Sequencing
Annotation
convert
updated 7.4 years ago by
andrew.j.skelton73
▴ 360 • written 8.4 years ago by
Jason Hackney
▴ 160
5
votes
5
replies
1.4k
views
Metagenomic analysis: Aligning ChIPseq data on TSS
metagenomics
chipseq
biomart
shortread
convert
biomaRt
7.7 years ago
patrick.schordert
▴ 30
0
votes
1
reply
1.4k
views
Converting .gpr files to .csv files
Microarray
GO
convert
updated 7.7 years ago by
James W. MacDonald
59k • written 7.7 years ago by
Guest User
★ 12k
0
votes
5
replies
1.8k
views
Motif enrichment analysis: Error in transfac format and background frequencies from BSGenome
BSgenome
convert
BSgenome
PWMEnrich
MotifDb
updated 7.7 years ago by
Robert Stojnic
▴ 80 • written 7.7 years ago by
deepti anand
▴ 50
0
votes
0
replies
977
views
ChIPpeakAnno
SNP
Annotation
annotate
convert
SNP
Annotation
annotate
convert
7.7 years ago
Julie Zhu
★ 4.3k
0
votes
1
reply
1.5k
views
narrow and xstringset
convert
convert
updated 7.8 years ago by
Valerie Obenchain
★ 6.7k • written 7.8 years ago by
carol white
▴ 680
0
votes
2
replies
2.1k
views
Biomart annotation
annotate
convert
annotate
convert
updated 7.8 years ago by
John Blischak
▴ 180 • written 7.8 years ago by
jarod_v6@libero.it
▴ 40
0
votes
2
replies
1.2k
views
ShortReadQ and conversion of quality scores to characters
convert
convert
updated 7.9 years ago by
Martin Morgan
25k • written 7.9 years ago by
Ivan Gregoretti
▴ 310
0
votes
1
reply
1.4k
views
SomaticSignatures
Annotation
Cancer
convert
Annotation
Cancer
convert
updated 7.9 years ago by
Julian Gehring
★ 1.3k • written 7.9 years ago by
Huma Asif
▴ 90
0
votes
6
replies
2.2k
views
converting probeset id to gene id's : fRMA
probe
affy
convert
frma
probe
affy
convert
frma
updated 7.9 years ago by
Peter Langfelder
★ 2.6k • written 7.9 years ago by
Abhishek Pratap
▴ 170
0
votes
7
replies
965
views
Approaches to building Rle sequences from ranges
GO
convert
GO
convert
updated 8.0 years ago by
Jeff Johnston
▴ 90 • written 8.0 years ago by
Vince S. Buffalo
▴ 40
0
votes
2
replies
1.7k
views
GRanges - coercion from dataframe
convert
convert
updated 8.0 years ago by
Michael Lawrence
11k • written 8.0 years ago by
Ghost
▴ 10
0
votes
4
replies
939
views
GenomicAlignments and QNAME collision
RNASeq
Cancer
convert
Rsamtools
GenomicAlignments
RNASeq
Cancer
convert
Rsamtools
updated 8.0 years ago by
Stefano Calza
▴ 90 • written 8.0 years ago by
Valerie Obenchain
★ 6.7k
0
votes
4
replies
923
views
error on loading ratioConvert() in minfi
convert
minfi
convert
minfi
updated 8.0 years ago by
Kasper Daniel Hansen
6.5k • written 8.0 years ago by
Guest User
★ 12k
1
vote
2
replies
10k
views
Mapping gene symbols to gene names (org.Hs.eg.db?)
convert
convert
updated 8.0 years ago by
James W. MacDonald
59k • written 8.0 years ago by
Tim Smith
★ 1.1k
0
votes
0
replies
759
views
viewApply drops feature names; transfer names between lists
Coverage
convert
Coverage
convert
8.0 years ago
Chris Seidel
▴ 80
0
votes
0
replies
1.6k
views
Pathview question
Network
convert
pathview
Network
convert
pathview
8.1 years ago
Luo Weijun
★ 1.5k
0
votes
9
replies
2.1k
views
ReportingTools gene IDs
convert
convert
updated 8.1 years ago by
James W. MacDonald
59k • written 8.1 years ago by
Assa Yeroslaviz
★ 1.5k
0
votes
5
replies
2.0k
views
summarizeOverlaps using GRanges or bed file as reads?
convert
convert
updated 8.1 years ago by
Martin Morgan
25k • written 8.1 years ago by
Ryan C. Thompson
7.8k
0
votes
0
replies
632
views
BiomaRt getBM error: Unknown column
convert
biomaRt
convert
biomaRt
8.1 years ago
Guest User
★ 12k
0
votes
5
replies
1.1k
views
A question about the function readGAlignmentPairs in GenomicRnages package
Alignment
Cancer
convert
GenomicAlignments
Alignment
Cancer
convert
GenomicAlignments
updated 8.1 years ago by
Hervé Pagès
15k • written 8.1 years ago by
Niu, Liang NIH/NIEHS [E]
▴ 50
0
votes
0
replies
1.1k
views
CellMix package use with own data matrix
convert
convert
8.1 years ago
Riba Michela
▴ 90
0
votes
0
replies
885
views
crlmm problem
SNP
convert
beadarray
crlmm
SNP
convert
beadarray
crlmm
8.1 years ago
Matthias Arnold
▴ 10
0
votes
0
replies
1.2k
views
DMR identification: minfi speed, memory problems
Annotation
convert
minfi
methyAnalysis
bumphunter
Annotation
convert
minfi
methyAnalysis
8.2 years ago
Allegra Petti
▴ 120
0
votes
8
replies
1.5k
views
methyAnalysis for DMR identification
convert
methyAnalysis
convert
methyAnalysis
updated 8.2 years ago by
Giovanni Calice
▴ 160 • written 8.2 years ago by
Guest User
★ 12k
0
votes
6
replies
2.2k
views
DMR identification: minfi speed, memory problems
Annotation
convert
minfi
methyAnalysis
bumphunter
Annotation
convert
minfi
methyAnalysis
updated 8.2 years ago by
James W. MacDonald
59k • written 8.2 years ago by
Guest User
★ 12k
0
votes
2
replies
819
views
Tigre Package question 3
Microarray
impute
PROcess
convert
mmgmos
puma
tigre
trigger
Microarray
impute
PROcess
updated 8.3 years ago by
Solanki, Anisha
▴ 60 • written 8.3 years ago by
Antti Honkela
▴ 50
0
votes
2
replies
1.2k
views
Minfi "mapToGenome" error when attempting to generate a genomicRatioSet
convert
minfi
convert
minfi
updated 8.3 years ago by
Kasper Daniel Hansen
6.5k • written 8.3 years ago by
Dale Watkins
▴ 30
0
votes
1
reply
1.0k
views
Using GOstats with ScanArray Express Data
Organism
probe
convert
GOstats
Organism
probe
convert
GOstats
updated 8.3 years ago by
Steve Lianoglou
13k • written 8.3 years ago by
Guest User
★ 12k
0
votes
3
replies
1.5k
views
ChIPpeakAnno: TSS at - strand
Annotation
convert
ChIPpeakAnno
Annotation
convert
ChIPpeakAnno
8.3 years ago
Julie Zhu
★ 4.3k
0
votes
2
replies
1.5k
views
ensemblVEP, variant_effect_predictor versions and release schedule
Transcription
HapMap
PolyPhen
SIFT
convert
genomes
ensemblVEP
Transcription
HapMap
SIFT
updated 8.3 years ago by
Valerie Obenchain
★ 6.7k • written 8.4 years ago by
Thomas Sandmann
▴ 30
0
votes
0
replies
790
views
Fwd: GWASTools
cdf
convert
GWASTools
cdf
convert
GWASTools
8.4 years ago
Stephanie M. Gogarten
▴ 820
0
votes
1
reply
1.9k
views
gage and GO analysis
GO
convert
gage
GO
convert
gage
updated 8.4 years ago by
Reema Singh
▴ 570 • written 8.4 years ago by
Guest User
★ 12k
0
votes
0
replies
765
views
CAMERA output to Neutral Monoisotopic Mass
convert
CAMERA
convert
CAMERA
8.4 years ago
Charles Determan Jr
▴ 140
1
vote
1
reply
1.7k
views
RleList
convert
IRanges
convert
IRanges
updated 8.4 years ago by
Michael Lawrence
11k • written 8.4 years ago by
Massimo Petretich
▴ 20
50 results • Page
1 of 1
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Comment: Quantile Normalization after rma or not?
by
Yang Shi
• 0
Thanks you so much sir! But I'm still confused with the boxplot showing here. Why oligo::rma could not get the plot like limma::normalizeBe…
Answer: how to understand cpm=1 and how filterByExpr works?
by
gowthamee
• 0
I found the following two articles very helpful in explaining the functions "cpm" and "filterByExpr" Article#1: From reads to genes to pat…
Comment: different results in DESeq2 when comparing groups in two ways
by
zohreh.fazelan
• 0
Thank you for your response. But I have few comparisons in which there are more significantly expressed genes in the socond way compared to…
Comment: lmFit, continuous exposure, adjustment covariates
by
Gordon Smyth
45k
Your code `t(dat[43:ncol(dat)]` is not even syntactically correct. It could not possibly run in R. You need to create an expression matrix…
Comment: Handling of missing values in limma
by
Gordon Smyth
45k
limma uses all the observations. There's nothing complicated about it. limma does not remove any persons from the analysis. I did not tel…
Votes
A: redundant probe sets in Affymetrix HG-U219
Answer: Quantile Normalization after rma or not?
Answer: Quantile Normalization after rma or not?
Answer: Using featureCounts and downloading Rsubread
Answer: different results in DESeq2 when comparing groups in two ways
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