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2
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Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(paste("networks", net.suid, "tables", tbl, sep = "/"), : object 're…
RCy3
12 days ago • updated 8 days ago Matthew Thornton ▴ 360
1
vote
9
replies
1.3k
views
GOstats - subsetting termGraphs with terms from the html report and missing nodes
GOstats
updated 14 months ago by • 0 • written 14 months ago by ▴ 360
6
votes
11
replies
3.1k
views
DEXSeq errors "Error in scan( line ... did not have 3 elements" and "Error in FUN(X[[i]], ...) : subscript out of bounds" (DEXSeqDataSetFromHTSeq)
DEXSeq
updated 14 months ago by • 0 • written 2.1 years ago by ▴ 360
2
votes
2
replies
1.1k
views
ensembldb to make the EnsDb for Human Version 105 using 'fetchTablesFromEnsembl' I'm on day two, can it be sped up?
ensembldb
2.2 years ago Matthew Thornton ▴ 360
0
votes
1
reply
4.0k
views
Processing Nanostring GeoMX Q3 normalized data as intensities with Limma
Limma GeoMX
updated 2.8 years ago by • 0 • written 2.9 years ago by ▴ 360
0
votes
0
replies
369
views
CAMTHC with RPKMs giving a very low cluster number than expected
CAMTHC
4.6 years ago Matthew Thornton ▴ 360
3
votes
4
replies
1.4k
views
Exporting graphNEL into Cytoscape using RCy3 fails with 'arguments imply differing number of rows'
RCy3 Cytoscape Rgraphviz GOstats
5.0 years ago Matthew Thornton ▴ 360
1
vote
3
replies
1.8k
views
Combining and using 10x Genomics output in SingleCellExperiment Objects
SingleCellExperiment
written 5.1 years ago by ▴ 360
1
vote
2
replies
1.3k
views
Segmentation Fault with development versions of R, Bioconductor, and DropletUtils when processing output of CellRanger 3.0.2
DropletUtils Bioc-devel
5.1 years ago Matthew Thornton ▴ 360
0
votes
4
replies
1.8k
views
Error importing molecule_info.h5 file generated by Cell Ranger 3.0.2 into DropletUtils
DropletUtils h5
updated 5.1 years ago by ★ 28k • written 5.1 years ago by ▴ 360
7
votes
7
replies
5.3k
views
What are the methods to get count data per cell from single cell fastq given only R1, R2, and I1 fastq files
fastq single cell
updated 5.2 years ago by 50k • written 5.2 years ago by ▴ 360
0
votes
4
replies
905
views
Annotation of DEXSeqHTML with biomaRt
dexseq biomart
6.1 years ago Matthew Thornton ▴ 360
0
votes
0
replies
1.1k
views
Figuring out what long decent Phred value unaligned reads are
rnaseq alignment
7.6 years ago Matthew Thornton ▴ 360
0
votes
2
replies
1.3k
views
xps - error in normalize - "Error: Length of non-varying units is zero."
Normalization PROcess xps Normalization PROcess xps
updated 9.8 years ago by ★ 3.9k • written 9.8 years ago by ▴ 360
0
votes
3
replies
1.5k
views
External RNA controls on Rat Gene ST 2.0 chip lfc ~ 1 after xps rma??
Normalization xps Normalization xps
updated 9.9 years ago by ▴ 350 • written 9.9 years ago by ▴ 360
0
votes
1
reply
1.3k
views
VSN with spike-in probes question
vsn vsn
updated 9.9 years ago by ★ 13k • written 9.9 years ago by ▴ 360
3
votes
4
replies
4.2k
views
What is the easiest way to make the GC content and length matrix for package cqn?
RNASeq edgeR cqn RNASeq edgeR cqn
updated 10.1 years ago by 25k • written 10.1 years ago by ▴ 360
0
votes
1
reply
1.3k
views
VSN after xps with RaGene2.0ST chips - is there a way to keep an identifier?
vsn PROcess xps vsn PROcess xps
updated 10.2 years ago by ★ 13k • written 10.2 years ago by ▴ 360
0
votes
3
replies
1.5k
views
Is there an expected coefficient of variation for the hybridization probe intensities among technical replicates?
probe probe
updated 10.2 years ago by ★ 3.9k • written 10.2 years ago by ▴ 360
2
votes
5
replies
15k
views
Limma design and contrast matrix question.
Microarray Regression limma Microarray Regression limma
updated 10.3 years ago by 66k • written 10.3 years ago by ▴ 360
0
votes
1
reply
1.3k
views
Statistics questions regarding the use of Ambion ExFold ERCC standards with Affmetrix ST arrays.
Normalization vsn graph Normalization vsn graph
updated 10.4 years ago by 66k • written 10.4 years ago by ▴ 360
0
votes
1
reply
2.2k
views
Importing RMA processed data into limma for eBayes
Microarray Normalization affy vsn limma PROcess xps Microarray Normalization affy vsn
10.4 years ago Matthew Thornton ▴ 360
0
votes
3
replies
2.0k
views
Potential bug in package("rtracklayer") undefined symbol regcompA
updated 11.1 years ago by ★ 8.2k • written 11.1 years ago by ▴ 360
0
votes
0
replies
1.6k
views
Bioconductor Digest, Vol 121, Issue 29
miRNA Annotation Normalization Visualization Clustering Infrastructure Cancer BSgenome vsn
11.2 years ago Matthew Thornton ▴ 360
0
votes
0
replies
971
views
I was wondering if anyone here was using SPP?
Sequencing Sequencing
11.2 years ago Matthew Thornton ▴ 360
0
votes
0
replies
2.1k
views
Bioconductor Digest, Vol 121, Issue 13
RNASeq Microarray Normalization GO Classification Clustering Cancer Mus musculus probe GO
11.2 years ago Matthew Thornton ▴ 360
0
votes
1
reply
2.2k
views
Bioconductor Digest, Vol 120, Issue 12
Microarray qPCR Coverage Annotation Pathways Visualization Cancer Breast Organism affy
11.3 years ago Matthew Thornton ▴ 360
1
vote
1
reply
1.1k
views
Normalizing affymetrix chips with ERCC
updated 11.5 years ago by ▴ 850 • written 11.5 years ago by ▴ 360
0
votes
2
replies
1.1k
views
Normalization of Affymetrix microarray data with spike-in hybridization controls?
updated 11.5 years ago by 66k • written 11.5 years ago by ▴ 360
0
votes
0
replies
1.0k
views
Simpleaffy error : No methods found in "Biobase" for requests: geneNames
simpleaffy simpleaffy
11.6 years ago Matthew Thornton ▴ 360
0
votes
0
replies
1.3k
views
library(simpleaffy) error
simpleaffy simpleaffy
11.6 years ago Matthew Thornton ▴ 360
31 results • Page 1 of 1
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