0
votes
0
replies
921
views
Announcement: NCI Second Symposium on Translational Genomics
Sequencing Cancer Sequencing Cancer
14.1 years ago Sean Davis 21k
0
votes
1
reply
1.2k
views
biomaRt querry error
biomaRt biomaRt
updated 14.1 years ago by 68k • written 14.1 years ago by ★ 1.5k
0
votes
4
replies
3.4k
views
edgeR glmFit -- how to define and test reduced, additive and interaction fitted models
edgeR edgeR
updated 14.1 years ago by 53k • written 14.1 years ago by ▴ 40
0
votes
2
replies
1.2k
views
MA plot for highthrouput qPCR array, shows bias?
updated 14.1 years ago by ★ 2.0k • written 14.1 years ago by ▴ 290
0
votes
0
replies
1.1k
views
HTqPCR useful for ChIP data ?
HTqPCR HTqPCR
14.1 years ago Heidi Dvinge ★ 2.0k
0
votes
0
replies
1.0k
views
HTqPCR
HTqPCR HTqPCR
14.1 years ago Heidi Dvinge ★ 2.0k
0
votes
4
replies
1.7k
views
trim adapter with mismatch tolerance
updated 14.1 years ago by ▴ 590 • written 14.1 years ago by ▴ 40
0
votes
0
replies
1.1k
views
HTqPCR package
qPCR probe qPCR probe
14.1 years ago Heidi Dvinge ★ 2.0k
0
votes
0
replies
952
views
HTqPCR and Biobase's eSet
Biobase nudge HTqPCR Biobase nudge HTqPCR
14.1 years ago Heidi Dvinge ★ 2.0k
0
votes
2
replies
1.5k
views
limma: bg correction using neqc() w/ Agilent arrays
updated 14.1 years ago by ★ 3.6k • written 14.1 years ago by ★ 4.1k
0
votes
0
replies
1.3k
views
Difference between LIMMA and Genespring
Microarray Genetics limma GeneSpring Microarray Genetics limma GeneSpring
14.1 years ago Gordon Smyth 53k
0
votes
14
replies
3.0k
views
EdgeR GLM
updated 14.1 years ago by 53k • written 14.1 years ago by ▴ 70
0
votes
1
reply
1.3k
views
remove empty short read after using trimEnds
ShortRead ShortRead
updated 14.1 years ago by 25k • written 14.1 years ago by ▴ 40
0
votes
1
reply
1.0k
views
about transcription factor binding site database
Transcription biomaRt Transcription biomaRt
updated 14.1 years ago by ★ 13k • written 14.1 years ago by ▴ 70
0
votes
0
replies
671
views
normalize.invariantset(data, ref, prd.td=c(0.003,0.007))
14.1 years ago Ali Mohammadian ▴ 290
0
votes
0
replies
979
views
Extracting PROBE_ID from lumiBatch
Annotation probe convert Annotation probe convert
14.1 years ago Pan Du ▴ 440
0
votes
1
reply
1.7k
views
Bug report.
GO GO
updated 14.1 years ago by 21k • written 14.1 years ago by ▴ 240
0
votes
0
replies
604
views
affymetrix mirna 2.0 probe package
14.1 years ago Guest User ★ 13k
0
votes
0
replies
993
views
[R] Fwd: Rgraphviz installation problem
Rgraphviz Rgraphviz
14.1 years ago Guest User ★ 13k
8
votes
3
replies
8.9k
views
Removing batch effects with sva and combat using the sva package
Regression limma sva Regression limma sva
updated 14.1 years ago by ▴ 60 • written 14.1 years ago by ▴ 650
0
votes
1
reply
1.7k
views
Difference between LIMMA and Genespring
limma GeneSpring limma GeneSpring
updated 14.1 years ago by ▴ 230 • written 14.1 years ago by ▴ 10
0
votes
2
replies
2.2k
views
getSequence with biomaRt
biomaRt biomaRt
updated 14.1 years ago by ★ 7.2k • written 14.1 years ago by ▴ 90
0
votes
0
replies
1.4k
views
TopTable function in affylmGUI does not have Gene names
affylmGUI affylmGUI
14.1 years ago Guest User ★ 13k
0
votes
1
reply
1.9k
views
Has anyone successfully used sva packages?
limma sva limma sva
updated 14.1 years ago by ▴ 60 • written 14.1 years ago by ▴ 970
0
votes
0
replies
860
views
Extracting PROBE_ID from lumiBatch
probe probe
14.1 years ago Thomas Hampton ▴ 750
0
votes
1
reply
1.2k
views
[biomaRt] contradicting gene information
updated 14.1 years ago by ★ 13k • written 14.1 years ago by ▴ 80
0
votes
1
reply
1.4k
views
GRangesList replacement method bug
updated 14.1 years ago by 16k • written 14.1 years ago by ▴ 10
1
vote
0
replies
2.0k
views
sva remove batch effect.
sva sva
14.1 years ago Fabrice Tourre ▴ 970
0
votes
1
reply
1.3k
views
Combining 2 different Affychips for analysis e.g. HGU133A and HGU133plus2
Microarray Microarray
updated 14.1 years ago by ★ 2.0k • written 14.1 years ago by ▴ 20
0
votes
0
replies
804
views
residual variances in Deseq packages
DESeq DESeq
14.1 years ago Hubert Rehrauer ▴ 100
0
votes
1
reply
874
views
question Re Infinium 450K data analysis
updated 14.1 years ago by ★ 4.2k • written 14.1 years ago by ▴ 10
0
votes
2
replies
2.4k
views
Distance from TSS and CPG
updated 14.1 years ago by ★ 4.2k • written 14.1 years ago by ▴ 400
0
votes
1
reply
742
views
error message in GeneSetTest in limma
Microarray limma Microarray limma
updated 14.1 years ago by 21k • written 14.1 years ago by ▴ 10
0
votes
0
replies
1.2k
views
Biostrings: PWM with background probabilities
GO GO
14.1 years ago Tim Smith ★ 1.1k
0
votes
1
reply
1.2k
views
how to use bioconductor to download all virus sequence from ncbi
updated 14.1 years ago by 21k • written 14.1 years ago by ★ 2.0k
0
votes
0
replies
770
views
MA plot for highthrouput qPCR assay
qPCR qPCR
14.1 years ago Ali Mohammadian ▴ 290
0
votes
5
replies
2.0k
views
deqseq_count and BWA-based SAM files
convert DEXSeq convert DEXSeq
updated 14.1 years ago by ▴ 70 • written 14.1 years ago by ★ 13k
0
votes
8
replies
5.1k
views
PCA to remove batch effect.
updated 14.1 years ago by ★ 2.0k • written 14.1 years ago by ▴ 970
0
votes
1
reply
1.8k
views
total number of reads? mapped reads? or total counts?
edgeR edgeR
updated 14.1 years ago by ▴ 880 • written 14.1 years ago by ★ 2.0k
1
vote
4
replies
1.8k
views
Minimal region of overlap between two GRanges objects
Cancer Cancer
updated 14.1 years ago by 25k • written 14.1 years ago by ★ 1.9k
0
votes
0
replies
1.1k
views
Combining 2 different Affychips for analysis e.g. HGU133A and HGU133plus2
hgu133plus2 hgu133plus2
14.1 years ago Guest User ★ 13k
0
votes
4
replies
1.5k
views
help with DESeq
Genetics Genetics
updated 14.1 years ago by ★ 3.8k • written 14.1 years ago by ▴ 190
0
votes
0
replies
1.7k
views
Obtaining DNA sequence with biomaRt getSequence
biomaRt biomaRt
14.1 years ago mpg33@drexel.edu ▴ 90
0
votes
2
replies
1.2k
views
Rocks cluster
updated 14.1 years ago by 6.7k • written 14.1 years ago by ▴ 150
0
votes
0
replies
1.5k
views
Installing Bioconductor packages on R 2.14.0 *without* administrator rights / from a script
safe BiocInstaller safe BiocInstaller
14.1 years ago Firas Swidan ▴ 50
0
votes
0
replies
1.2k
views
seeking help on cghMCR pleeeease
DNAcopy cghMCR DNAcopy cghMCR
14.1 years ago nac ▴ 280
0
votes
0
replies
1.6k
views
seqLogo package: sequence logo graph with background frequency?
seqLogo seqLogo
14.1 years ago Tim Smith ★ 1.1k
0
votes
4
replies
2.0k
views
IDAT files upload error, MethyLumiM object: IlluminaHumanMethylation450k
14.1 years ago Magdalena Wozniak ▴ 50
0
votes
0
replies
1.0k
views
RNA-seq Workshop An introductory course to RNA-seq 1st-2nd March 2012 Torino, Italy
Network Network
14.1 years ago rcaloger ▴ 500
0
votes
2
replies
1.0k
views
Should I compute RMA expression measures separately for different treament groups?
Normalization Normalization
updated 14.1 years ago by ★ 13k • written 14.1 years ago by ▴ 120
46,730 results • Page 608 of 935
Recent ...
Replies
Answer: Bile acid analysis with limpa by Gordon Smyth 53k
I am not familiar with targeted HPLC-MS and I don't know what you mean by "peak areas". If it produces standard mass spec data, then limpa …
Comment: How to convert .raw data for use in xcms by TikTsossa33ssalpc • 0
It sounds like your mzML conversion has a CV term that XCMS doesn t recognize, which often happens with newer vendor formats or outdated ms…
Comment: Boolean Gate Combination for Any 2 Positive Events in flowWorkspace by TikTsossa33ssalpc • 0
To calculate event numbers for boolean combinations in flow cytometry, you should use a logic gating tool or a script that processes popula…
Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2 by chp265 • 0
Confirming my understanding after executing the code provided: this is similar to a design formula of `~0+mouse+group+group:allele`, except…
Comment: Combining two proteomics datasets with limpa by Andrew Pattison • 0
Thanks heaps Gordon. I went with option 1 and no normalisation and all seems to have worked well. Cheers, Andrew
Votes
A: DESeq2: Is it possible to convert read counts to expression values via TPM and r
A: Filtering read counts matrix: how to deal with duplicated gene symbols, differen
Comment: limpa analysis advice
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Awards • All
Popular Question to ATpoint ★ 5.0k
Popular Question to Martin Morgan 25k
Teacher to Michael Love 43k
Popular Question to A • 0
Popular Question to Lluís Revilla Sancho ▴ 760
Locations • All
WEHI, Melbourne, Australia, 10 minutes ago
United States, 13 minutes ago
Melbourne, Australia, 59 minutes ago
Australia, 1 hour ago
The city by the bay, 1 hour ago
Traffic: 1248 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6