Showing : easyrnaseq • reset
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easyRNASeq error: Error in aggregate.data.frame(as.data.frame(x), ...) : no rows to aggregate
easyrnaseq
9.4 years ago sylvian • 0
1
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13
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3.0k
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Several issues with the package easyRNASeq
easyrnaseq bug
8.8 years ago Michael Dondrup ▴ 10
0
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17
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2.8k
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Issue with easyRNASeq
easyRNASeq error
8.8 years ago ea11g0 • 0
0
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7
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2.6k
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GTF file error when using easyRNAseq�
Annotation Organism BSgenome BSgenome DESeq easyRNASeq Annotation Organism BSgenome DESeq
updated 10.4 years ago by ★ 1.2k • written 10.5 years ago by ★ 13k
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5
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2.6k
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count tables created with easyRNASeq and the rpkm() function from edgeR
easyrnaseq edger rpkm
updated 9.2 years ago by ▴ 320 • written 9.2 years ago by ▴ 80
0
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2
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2.5k
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counting RNA-seq reads in R/BioC
GO Infrastructure Rsubread easyRNASeq GO Infrastructure Rsubread easyRNASeq
updated 11.6 years ago by ★ 6.8k • written 11.6 years ago by ▴ 880
0
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5
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2.4k
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EasyRNASeq issue (missing bai files)
GO PROcess DESeq easyRNASeq GO PROcess DESeq easyRNASeq
updated 11.8 years ago by ▴ 10 • written 11.8 years ago by ★ 1.2k
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5
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2.3k
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easyRNAseq annotation file
easyrnaseq annotation
8.6 years ago kylvalda • 0
1
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2
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2.3k
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mgcv not updating
mgcv easyRNASeq
updated 3.2 years ago by 25k • written 3.2 years ago by ▴ 10
0
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2
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2.2k
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using easyRNASeq to calculate RPKM values
easyRNASeq easyRNASeq
updated 11.3 years ago by ★ 1.2k • written 11.3 years ago by ▴ 260
0
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7
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2.2k
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Getting counts for previously undetected transcripts and genes with easyRNASeq: comparison to Cufflinks
RNASeq Annotation Cancer edgeR cqn easyRNASeq RNASeq Annotation Cancer edgeR cqn
updated 11.4 years ago by ★ 1.2k • written 11.4 years ago by ★ 2.0k
1
vote
5
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2.1k
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Getting a count matrix from a SummerizedExpriment with EasyRNASeq
easyrnaseq
9.5 years ago Sylvain Foisy ▴ 80
0
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8
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2.0k
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Using easyRNASeq package: question about BAM/BAI and links to them
easyRNASeq easyRNASeq
updated 10.4 years ago by ▴ 80 • written 10.4 years ago by ▴ 80
2
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6
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1.9k
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easyRNAseq says Your annotation is not in sync with your alignments!
easyRNAseq
updated 9.2 years ago by ▴ 320 • written 9.2 years ago by • 0
0
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3
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1.9k
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Error: 'devel' version requires a more recent R
GUI Cancer easyRNASeq GUI Cancer easyRNASeq
updated 11.4 years ago by 21k • written 11.4 years ago by ★ 2.0k
0
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1
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1.9k
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Using a countDataSet as input data in DESeq2
easyRNASeq easyRNASeq
updated 10.4 years ago by 41k • written 10.4 years ago by ★ 13k
0
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4
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1.7k
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easyRNASeq error
Sequencing Alignment Annotation Organism BSgenome biomaRt BSgenome easyRNASeq Sequencing
12.2 years ago • updated 12.1 years ago delhomme@embl.de ★ 1.2k
0
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6
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1.7k
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easyRNASeq: "Error in IRangesList"
easyRNASeq
8.9 years ago surjray • 0
0
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5
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1.6k
views
EasyRNAseq - error in building count table - Error in unlist
Sequencing RNASeq edgeR easyRNASeq Sequencing RNASeq edgeR easyRNASeq
updated 10.6 years ago by ★ 1.2k • written 10.6 years ago by ★ 13k
0
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2
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1.6k
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Package installation errors for Bioconductor and easyRNASeq
installation biocinstaller easyrnaseq
updated 8.4 years ago by 25k • written 8.4 years ago by • 0
0
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0
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1.6k
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Error message with transcriptCounts(easyRNASeq) performed with gtf file generated with cuffmerge
RNASeq Annotation Normalization Cancer Organism BSgenome BSgenome easyRNASeq RNASeq
11.3 years ago Richard Friedman ★ 2.0k
0
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2
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1.5k
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easyRNAseq and DEseq for no replicate RNAseq
RNASeq PROcess easyRNASeq RNASeq PROcess easyRNASeq
updated 10.4 years ago by ▴ 320 • written 10.4 years ago by ▴ 10
0
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1
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1.4k
views
some problems of easyRNASeq� : about the gtf files
Annotation easyRNASeq Annotation easyRNASeq
updated 11.1 years ago by ★ 1.2k • written 11.1 years ago by ★ 13k
0
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1
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1.4k
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simpleRNASeq stopped running (related to S4 vectors?)
simplernaseq easyrnaseq s4vectors
updated 8.4 years ago by ▴ 320 • written 8.4 years ago by • 0
4
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5
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1.4k
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Warning: missing reverse strand option in easyRNASeq.
easyrnaseq rnaseq strand
updated 6.9 years ago by 16k • written 6.9 years ago by ▴ 10
2
votes
2
replies
1.4k
views
Error reading BAM file with duplicated header in easyRNAseq and GenomicAlignments
software error easyrnaseq genomicalignments bam
updated 8.6 years ago by 25k • written 8.6 years ago by ▴ 10
0
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1
reply
1.4k
views
Problems in running easyRNASeq
Annotation Organism DEGseq easyRNASeq Annotation Organism DEGseq easyRNASeq
updated 11.2 years ago by ★ 1.2k • written 11.2 years ago by ★ 13k
0
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1
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1.4k
views
error in easyRNASeq
RNASeq BSgenome BSgenome easyRNASeq RNASeq BSgenome BSgenome easyRNASeq
updated 11.5 years ago by ★ 1.2k • written 11.5 years ago by ▴ 510
0
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1
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1.3k
views
eayRNASeq with Ensemble GRCh37 help
Annotation Organism easyRNASeq DESeq2 Annotation Organism easyRNASeq DESeq2
updated 10.6 years ago by ★ 1.2k • written 10.6 years ago by ▴ 10
0
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1
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1.3k
views
easyRNASeq packages: overlapping exons warning unsolved (?) and use of paired end information
Coverage Annotation GO Cancer Organism edgeR DESeq GenomicRanges Rsubread easyRNASeq GO
updated 10.4 years ago by ▴ 320 • written 10.4 years ago by 50k
0
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0
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1.3k
views
RPKM calculation genewise
Normalization Visualization easyRNASeq Normalization Visualization easyRNASeq
11.1 years ago delhomme@embl.de ★ 1.2k
0
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2
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1.3k
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Error of GTF Annotation in easyRNASeq
miRNA Annotation easyRNASeq miRNA Annotation easyRNASeq
11.6 years ago delhomme@embl.de ★ 1.2k
0
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2
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1.3k
views
easyRNASeq install problem
easyRNASeq easyRNASeq
updated 11.7 years ago by 21k • written 11.7 years ago by ▴ 50
0
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6
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1.3k
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question on easyRNASeq developer version
easyRNASeq easyRNASeq
updated 11.6 years ago by ▴ 20 • written 11.6 years ago by ★ 1.2k
0
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0
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1.3k
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get synthetic exon dataset with easyRNASeq
RNASeq Alignment Annotation Normalization GO PROcess GenomicRanges DEXSeq easyRNASeq GO
11.5 years ago delhomme@embl.de ★ 1.2k
0
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2
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1.3k
views
Devel version of easyRNASeq: using the simpleRNASeq method gives an error
Annotation easyRNASeq Annotation easyRNASeq
updated 10.1 years ago by ▴ 80 • written 10.1 years ago by ▴ 320
0
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2
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1.3k
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simpleRNASeq error importing BAM files
simpleRNASeq easyRNASeq
updated 8.8 years ago by 65k • written 8.8 years ago by • 0
0
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1
reply
1.3k
views
easyRNAseq remove overlapping features
Annotation BSgenome BSgenome IRanges easyRNASeq Annotation BSgenome BSgenome IRanges
updated 11.3 years ago by ★ 1.2k • written 11.3 years ago by ▴ 150
0
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1
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1.3k
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Warnings with running easyRNASeq with easyRNASeq tutorial
RNASeq Annotation GUI Cancer BSgenome BSgenome easyRNASeq RNASeq Annotation GUI Cancer
updated 11.8 years ago by ★ 1.2k • written 11.8 years ago by ★ 2.0k
0
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2
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1.3k
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error message with easyRNASeq use case
RNASeq Cancer Organism easyRNASeq RNASeq Cancer Organism easyRNASeq
updated 11.4 years ago by 65k • written 11.4 years ago by ★ 2.0k
0
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0
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1.2k
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error in "count" for SummarizedExperiment in easyRNASeq
easyRNASeq DESeq2 easyRNASeq DESeq2
10.6 years ago Lescai, Francesco ▴ 380
0
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1
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1.2k
views
Devel version of easyRNASeq: using the simpleRNASeq method gives an error
easyRNASeq easyRNASeq
updated 10.1 years ago by ▴ 320 • written 10.1 years ago by ▴ 80
0
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0
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1.2k
views
easyRNASeq packages: overlapping exons warning unsolved (?) and use of paired end information
Coverage Annotation GO Cancer Organism edgeR DESeq GenomicRanges easyRNASeq Coverage GO
10.4 years ago Nicolas Delhomme ▴ 320
0
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3
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1.2k
views
simpleRNASeq easyRNAseq warnings edgeR error
simplernaseq easyrnaseq edger DEformats
updated 6.2 years ago by ▴ 320 • written 6.3 years ago by • 0
0
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2
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1.1k
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easyRNASeq package: error when summarizing per gene
RNASeq Annotation Organism BSgenome BSgenome easyRNASeq RNASeq Annotation Organism
updated 11.6 years ago by ★ 1.2k • written 11.6 years ago by ★ 13k
0
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1
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1.1k
views
it is strange that I cannot get the fpkm by using easyRNASeq
Annotation BSgenome BSgenome easyRNASeq Annotation BSgenome BSgenome easyRNASeq
updated 11.0 years ago by ▴ 30 • written 11.0 years ago by ★ 13k
0
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4
replies
1.1k
views
easyRNAseq question
easyRNASeq easyRNASeq
updated 11.9 years ago by ▴ 190 • written 11.9 years ago by ★ 1.2k
0
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0
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1.1k
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using easyRNASeq examples
RNASeq Annotation BSgenome convert biomaRt BSgenome IRanges DESeq easyRNASeq RNASeq
12.2 years ago delhomme@embl.de ★ 1.2k
0
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0
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1.1k
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easyRNASeq packages: overlapping exons warning unsolved (?) and use of paired end information
Annotation Organism edgeR DESeq easyRNASeq Annotation Organism edgeR DESeq easyRNASeq
10.9 years ago Gabriele Zoppoli ▴ 50
0
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1
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1.0k
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How to combine different annotation (chromosomic, genic) when using easyRNASeq (was easyRNASeq error)
RNASeq Annotation Organism biomaRt easyRNASeq RNASeq Annotation Organism biomaRt
updated 12.1 years ago by ▴ 350 • written 12.1 years ago by ★ 1.2k
50 results • Page 1 of 1
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Comment: DESeq2 - dispersion estimation when there is none by WardDeb • 0
Thank you for the pointers, I'll revert back again to the method section of the paper. As for the negative relationship of the estimated di…
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Hello James, How to generate the db? By running the makeOrgPackageFromNCBI() command? I have tried doing that, first by just deleting the …
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Hi Jose and Russ, Apologies to Jose for not seeing this earlier. Sometimes the loess smoother in the bottom panel will throw this error …
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Sure, I changed it but still NULL G0 <- enrichGO( gene = ortologos_filtrados$Gene.ID, OrgDb = org.Cs.eg.db, keyType = "ENTREZID",…
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No, you cannot use residuals to compute logFCs. From the information you give, I guess that you need to add individual-specific condition …
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Answer: DESeq2 - dispersion estimation when there is none
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Comment: Cannabis and KEGGgraph
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