Showing : crlmm • reset
11
votes
23
replies
2.6k
views
crlmm support for Illumina arrays with no annotation package?
crlmm QCarray annotation
updated 4.3 years ago by • 0 • written 4.5 years ago by ▴ 30
0
votes
8
replies
1.5k
views
crlmm warning
oligo crlmm oligo crlmm
updated 17.1 years ago by ★ 4.3k • written 17.1 years ago by ▴ 190
0
votes
7
replies
1.4k
views
problem to compute copy number with crlmm
GLAD crlmm GLAD crlmm
updated 14.5 years ago by ▴ 250 • written 14.5 years ago by ▴ 40
0
votes
6
replies
1.5k
views
QC Affy 6.0 SNP arrays with crlmm or Oligo?
Normalization oligo crlmm Normalization oligo crlmm
updated 14.1 years ago by ★ 4.3k • written 14.1 years ago by ▴ 150
0
votes
6
replies
2.0k
views
CRLMM: Error in quantile.default(M, c(1, 5)/6, names = FALSE)
crlmm
updated 6.9 years ago by ▴ 1000 • written 7.7 years ago by ▴ 120
1
vote
6
replies
2.1k
views
Copy number analysis from Illumina 550K chip
illumina copynumber crlmm
8.5 years ago stuti.agrawal • 0
0
votes
6
replies
2.5k
views
crlmm : copy number and genotyping of Illumina data
SNP Annotation Normalization crlmm copynumber SNP Annotation Normalization crlmm
updated 9.9 years ago by ▴ 1000 • written 9.9 years ago by ▴ 160
0
votes
5
replies
1.8k
views
CRLMM: Which array type work with which annotation package
crlmm
updated 7.6 years ago by ▴ 1000 • written 7.6 years ago by ▴ 120
0
votes
5
replies
1.4k
views
crlmm package help for copy number affymetrix snp 6.0
SNP crlmm SNP crlmm
updated 13.9 years ago by ★ 4.3k • written 13.9 years ago by ▴ 60
1
vote
5
replies
1.9k
views
CRLMM on Illumina Human1Mv1_C chips
crlmm illumina beadarraysnp
updated 9.1 years ago by ▴ 1000 • written 9.2 years ago by ▴ 30
0
votes
4
replies
1.4k
views
Trouble following the first 5 lines of vanillaICE tutorial?
SNP6 crlmm vanillaice vanillaice crlmm cnv
updated 8.9 years ago by • 0 • written 8.9 years ago by ▴ 20
0
votes
4
replies
2.3k
views
genotyping output files
PROcess SNPchip crlmm PROcess SNPchip crlmm
12.3 years ago Rafiq S. ▴ 20
2
votes
4
replies
1.6k
views
Crlmm HumanOmniExpress-24v1 Annotation not available
crlmm
updated 5.9 years ago by • 0 • written 8.7 years ago by ▴ 370
1
vote
4
replies
1.5k
views
crlmm crossprod error, and missing files in annotation
crlmm
updated 8.7 years ago by ▴ 1000 • written 8.7 years ago by ▴ 370
0
votes
3
replies
4.7k
views
Translating AB/BB/AA into a SNP with Illumina data
SNP crlmm SNP crlmm
updated 11.8 years ago by ▴ 870 • written 11.8 years ago by ▴ 480
0
votes
3
replies
742
views
How to use CRLMM with Affy 5.0 arrays
crlmm crlmm
updated 15.7 years ago by ★ 4.3k • written 15.7 years ago by ▴ 20
0
votes
3
replies
1.6k
views
crlmm and cluster centres error
crlmm crlmm
updated 13.6 years ago by ★ 4.3k • written 13.6 years ago by ▴ 50
0
votes
3
replies
1.5k
views
Error: All CEL files must be of the same type when running CRLMM
SNP crlmm SNP crlmm
updated 14.8 years ago by 6.7k • written 14.8 years ago by ▴ 50
0
votes
3
replies
902
views
Oligo package crlmm method
SNP oligo crlmm SNP oligo crlmm
updated 13.6 years ago by ★ 4.3k • written 13.6 years ago by ★ 4.3k
0
votes
3
replies
1.3k
views
cram for new chips
beadarray illumina beadarray crlmm
updated 5.8 years ago by ★ 6.8k • written 5.9 years ago by • 0
0
votes
2
replies
1.2k
views
Analysis with SnpSet object CRLMM package
crlmm crlmm
updated 12.4 years ago by ★ 4.3k • written 12.4 years ago by ▴ 70
0
votes
2
replies
1.0k
views
pdInfoBuilder -- MOUSEDIVm520650
Annotation pdInfoBuilder crlmm Annotation pdInfoBuilder crlmm
updated 13.9 years ago by 65k • written 13.9 years ago by ▴ 100
0
votes
2
replies
1.1k
views
crlmm error in Mac OS
oligo crlmm oligo crlmm
updated 13.1 years ago by 6.7k • written 13.1 years ago by ▴ 10
0
votes
2
replies
1.3k
views
Question on copy number estimation for Affymetrix SNP array 100k and 500k
SNP crlmm genoCN SNP crlmm genoCN
updated 13.6 years ago by ★ 2.4k • written 13.6 years ago by ★ 4.3k
0
votes
2
replies
991
views
"oligo" crashes in windows XP
SNP GO affyio oligo crlmm SNP GO affyio oligo crlmm
updated 17.3 years ago by ★ 4.3k • written 17.3 years ago by ▴ 190
0
votes
2
replies
842
views
crlmm - computeCopynumber error
crlmm crlmm
updated 15.0 years ago by ▴ 250 • written 15.0 years ago by ▴ 170
0
votes
2
replies
2.0k
views
reading .idat files using genotype.Illumina in crlmm
crlmm idat
updated 8.9 years ago by ▴ 1000 • written 8.9 years ago by ▴ 720
0
votes
2
replies
1.5k
views
crlmm problem
SNP beadarray crlmm SNP beadarray crlmm
10.2 years ago Aaerp ▴ 40
0
votes
1
reply
903
views
crlmm and snpMatrix
snpMatrix crlmm snpMatrix crlmm
updated 13.9 years ago by ★ 4.3k • written 13.9 years ago by ▴ 270
1
vote
1
reply
1.4k
views
Illumina Infinium Global Screening Array (GSA) v1.0 for CRLMM
crlmm gsa microarray illumina
written 6.0 years ago by • 0
0
votes
1
reply
1.1k
views
ilumina CanineHD
cdf crlmm cdf crlmm
updated 12.3 years ago by ▴ 1000 • written 12.3 years ago by ▴ 10
0
votes
1
reply
586
views
affy package and SNP arrays
crlmm hapmapsnp6 genomewidesnp6Crlmm affy
updated 10 months ago by ★ 3.9k • written 10 months ago by 6.7k
0
votes
1
reply
1.2k
views
Bug?: crlmm and cdfName not valid
software error crlmm
updated 7.6 years ago by ▴ 1000 • written 7.6 years ago by • 0
0
votes
1
reply
783
views
Error using crlmm
Normalization affy crlmm Normalization affy crlmm
updated 14.8 years ago by ★ 4.3k • written 14.8 years ago by ▴ 50
0
votes
1
reply
1.9k
views
Reading Illumina IDAT files
crlmm crlmm
updated 13.8 years ago by ▴ 1000 • written 13.8 years ago by ▴ 910
0
votes
1
reply
1.5k
views
Copy Number Analysis across multiple SNP array plaforms
SNP Cancer crlmm ffpe SNP Cancer crlmm ffpe
updated 12.0 years ago by ▴ 210 • written 12.0 years ago by ▴ 20
0
votes
1
reply
1.2k
views
boxplot/histograms on preprocessed SNP affy data with crlmm package
SNP oligo crlmm SNP oligo crlmm
updated 11.9 years ago by ★ 4.3k • written 11.9 years ago by ▴ 840
0
votes
1
reply
1.2k
views
crlmm Illumina cdfName "human1mv1c" not valid
crlmm crlmm
updated 11.8 years ago by ▴ 250 • written 11.8 years ago by ▴ 10
0
votes
1
reply
1.4k
views
beadarray illumina Human610-Quadv1_B.bpm
crlmm crlmm
updated 13.8 years ago by ▴ 1000 • written 13.8 years ago by ▴ 80
0
votes
1
reply
1.5k
views
Crlmm package
SNP Annotation Normalization crlmm SNP Annotation Normalization crlmm
updated 11.2 years ago by ▴ 1000 • written 11.2 years ago by ▴ 400
0
votes
1
reply
790
views
how to use the confs value in crlmm
crlmm crlmm
updated 11.1 years ago by ★ 4.3k • written 11.2 years ago by ★ 13k
0
votes
1
reply
2.1k
views
crlmm : copy number and genotyping of Illumina data
SNP Annotation Normalization crlmm copynumber SNP Annotation Normalization crlmm
updated 10.2 years ago by ▴ 1000 • written 10.2 years ago by ▴ 160
0
votes
1
reply
1.2k
views
(CRLMM) an issue needs to be clarified
SNP affy crlmm SNP affy crlmm
15.2 years ago Ping-Hsun Hsieh ▴ 30
0
votes
1
reply
1.5k
views
CRLMM for Affymetrix Axiom Genome-Wide Population-Optimized Human Arrays
crlmm axiom
updated 9.4 years ago by ★ 4.3k • written 9.4 years ago by • 0
0
votes
1
reply
1.0k
views
crlmm package and allele-specific CNV with Illumina SNP arrays
SNP crlmm SNP crlmm
updated 13.6 years ago by ▴ 250 • written 13.6 years ago by ▴ 20
0
votes
1
reply
1.1k
views
about: analyze 250K sty SNP array
crlmm crlmm
updated 15.6 years ago by ★ 2.4k • written 15.6 years ago by ▴ 10
0
votes
1
reply
1.4k
views
NAs with rawCopynumber() and discrepancies with estimated computed in parallel
crlmm copynumber
9.1 years ago kforner • 0
0
votes
1
reply
1.5k
views
crlmm and Illumina Infinium arrays
crlmm crlmm
updated 15.0 years ago by ▴ 1000 • written 15.0 years ago by ▴ 170
0
votes
1
reply
876
views
Interpretation of genotype calls from Oligo crlmm algorithm
SNP oligo crlmm SNP oligo crlmm
updated 14.1 years ago by ★ 4.3k • written 14.1 years ago by ▴ 150
0
votes
1
reply
1.3k
views
"genomdat must be numeric" error form DNACopy package
software error dnacopy crlmm
updated 8.8 years ago by 65k • written 8.9 years ago by • 0
50 results • Page 1 of 1
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Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by Alexandre • 0
My code for the sessionInfo() . If the pictures are too big, I will downsize them. THank you again for reading my post ! ```r > sessionInf…
Comment: Reproducibility issue with scran together with lapply and BiocParallel by ATpoint ★ 4.0k
Thanks Aaron for the response. RNGseed (for me) has no effect. I actually stumbled over this in one of my analysis where I have a constant …
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by winwater0928 • 0
Thank you for your comment! 1)"Your contrast is comparing LGR5 to Homeostasis." means (Lgr5)/(Homeostasis). Is it right? Then, I think if…
Answer: Reproducibility issue with scran together with lapply and BiocParallel by Aaron Lun ★ 28k
IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…
Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k
This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…
Votes
C: null model and DEXSeqDataSet object in DEXSEQ
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
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