Showing : SGSeq • reset
1
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15
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3.2k
views
Issues with SGSeq: plotFeatures method returns NULL
sgseq
updated 7.6 years ago by ▴ 180 • written 7.7 years ago by ▴ 80
1
vote
6
replies
2.1k
views
SGSeq error on analyzeFeatures
SGSeq analyzeFeatures Splicing
9.4 years ago • updated 9.3 years ago Paolo Guarnieri ▴ 20
1
vote
6
replies
1.9k
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Error when predicting features with SGSeq
SGSeq
updated 8.8 years ago by ▴ 80 • written 8.8 years ago by ▴ 150
0
votes
6
replies
1.5k
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Which sequencing parameters are required for SGSeq analysis of splice events?
rna-seq alternative splicing SGSeq
5.5 years ago andrea.bast • 0
0
votes
3
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1.1k
views
question about subsetting SGSeq results by different categories of splice events
sgseq
updated 6.8 years ago by ▴ 180 • written 6.8 years ago by • 0
4
votes
5
replies
1.5k
views
R session crash with SGSeq::convertToTxFeatures
crash SGSeq TxDb makeTxDbFromBiomart TxFeatures
updated 6.6 years ago by ▴ 180 • written 6.6 years ago by ▴ 10
0
votes
15
replies
2.1k
views
Issues with SGSeq: analyzeVariants method returns an error...
sgseq analyzevariants
updated 7.4 years ago by ▴ 180 • written 7.6 years ago by ▴ 80
5
votes
8
replies
3.0k
views
Issues with SGSeq: analyzeFeatures() returns errors on BAM files
sgseq
updated 4.4 years ago by • 0 • written 7.7 years ago by ▴ 80
1
vote
4
replies
1.1k
views
How should I handle read counts derived from SGSeq when they were passed to limma/edgeR
SGSeq limma edgeR
updated 3.5 years ago by ▴ 180 • written 3.5 years ago by ▴ 10
1
vote
1
reply
1.6k
views
SGSeq error on getBamInfo
SGSeq getBamInfo RNASeq
updated 6.6 years ago by ▴ 180 • written 6.6 years ago by ▴ 10
2
votes
2
replies
1.6k
views
SGSeq: class of "sample_info" argument of analyzeFeatures, data.frame or DataFrame!
sgseq
updated 8.2 years ago by ▴ 180 • written 8.2 years ago by ▴ 40
3
votes
16
replies
2.6k
views
Read counts generated by SGSeq are always 0
sgseq splicing alternative splicing
updated 8.2 years ago by ▴ 180 • written 8.2 years ago by ▴ 10
0
votes
5
replies
1.6k
views
Error when running getSGFeatureCounts
SGSeq software error
updated 7.2 years ago by ▴ 180 • written 7.2 years ago by • 0
8
votes
4
replies
1.6k
views
SGSeq: moving toward diffex from SGSeq analysis
sgseq rnaseq
updated 6.7 years ago by ▴ 180 • written 6.7 years ago by ▴ 80
0
votes
1
reply
915
views
SGFeatureCounts function in SGSeq package failed to generate splice graphs
sgseq
updated 6.5 years ago by ▴ 180 • written 6.5 years ago by • 0
0
votes
2
replies
769
views
using only uniquely-mapping reads for alternative splicing using SGSeq
rna seq SGSeq Alternative splicing
updated 4.5 years ago by ▴ 180 • written 4.5 years ago by • 0
3
votes
3
replies
872
views
Custom gene annotations for SGSeq
sgseq alternative splicing rna seq
updated 4.4 years ago by ▴ 180 • written 4.4 years ago by • 0
0
votes
1
reply
710
views
Extract sample information from own BAM files using SGSeq
SGSeq
updated 4.4 years ago by ▴ 180 • written 4.4 years ago by • 0
0
votes
1
reply
123
views
The issue with SGSeq_analyzeFeatures() returns errors on BAM files
SGSeq
updated 9 days ago by • 0 • written 14 days ago by • 0
0
votes
0
replies
145
views
Could SGSeq utilizes "ts" tag produced from minimap2 other than "XS" tag?
XS-tag SplicedAlignment SGSeq minimap2
7 weeks ago jk • 0
0
votes
0
replies
19
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Differential splicing from SGSeq analysis
DEXSeq SGSeq
1 day ago Sara • 0
0
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0
replies
245
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SGSeq how export PSI values for each typr of splice variant
SGSeq
5 months ago Alison • 0
0
votes
0
replies
843
views
How to run my own data using SGSeq?
annotation sgseq
updated 5.2 years ago by 3.8k • written 5.2 years ago by • 0
23 results • Page 1 of 1
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Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k
Are you commenting on the OP's question, or adding a different question? If the latter, please start a new post rather than piggybacking on…
Answer: Math expression in shapeCustom legend in EnhancedVolcano by James W. MacDonald 65k
Use `bquote`. See section 4.6 in [the vignette][1]. [1]: https://bioconductor.org/packages/release/bioc/vignettes/EnhancedVolcano/in…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by SamGG ▴ 350
I was thinking about removing unwanted variations at the sample level (ie a transformation shared across genes) not at the gene level. Corr…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k
That's an assumption used for normalization of a sample, not an assumption you can use for an individual model. We always normalize to atte…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by SamGG ▴ 350
Is useless the assumption that the majority of genes have no variation in expression (bearing in mind that they are distributed over the en…
Votes
biomaRt error: database disk image is malformed
Comment: biomaRt : No lock file for BiocFileCache
Answer: Cross-species analysis - how to compute the mid parent value?
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
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