Showing : SGSeq • reset
10
votes
11
replies
2.7k
views
SGSeq: moving toward diffex from SGSeq analysis
sgseq rnaseq
updated 11 months ago by • 0 • written 7.7 years ago by ▴ 80
0
votes
0
replies
369
views
how to do Differential splicing from SGSeq analysis
DEXSeq SGSeq
12 months ago Sara • 0
1
vote
1
reply
508
views
The issue with SGSeq_analyzeFeatures() returns errors on BAM files
SGSeq
updated 12 months ago by • 0 • written 12 months ago by • 0
1
vote
0
replies
601
views
Could SGSeq utilizes "ts" tag produced from minimap2 other than "XS" tag?
XS-tag SplicedAlignment SGSeq minimap2
14 months ago jk ▴ 10
0
votes
0
replies
510
views
SGSeq how export PSI values for each typr of splice variant
SGSeq
17 months ago Alison • 0
2
votes
5
replies
1.7k
views
How should I handle read counts derived from SGSeq when they were passed to limma/edgeR
SGSeq limma edgeR
updated 7 months ago by • 0 • written 4.6 years ago by ▴ 10
6
votes
8
replies
3.8k
views
Issues with SGSeq: analyzeFeatures() returns errors on BAM files
sgseq
updated 5.4 years ago by ▴ 10 • written 8.7 years ago by ▴ 80
2
votes
1
reply
1.1k
views
Extract sample information from own BAM files using SGSeq
SGSeq
updated 5.4 years ago by ▴ 260 • written 5.4 years ago by ▴ 10
4
votes
4
replies
1.3k
views
Custom gene annotations for SGSeq
sgseq alternative splicing rna seq
updated 9 months ago by • 0 • written 5.4 years ago by • 0
0
votes
2
replies
1.2k
views
using only uniquely-mapping reads for alternative splicing using SGSeq
rna seq SGSeq Alternative splicing
updated 5.5 years ago by ▴ 260 • written 5.5 years ago by • 0
0
votes
0
replies
1.0k
views
How to run my own data using SGSeq?
annotation sgseq
updated 6.2 years ago by 4.1k • written 6.2 years ago by • 0
0
votes
6
replies
1.9k
views
Which sequencing parameters are required for SGSeq analysis of splice events?
rna-seq alternative splicing SGSeq
6.5 years ago andrea.bast • 0
0
votes
1
reply
1.2k
views
SGFeatureCounts function in SGSeq package failed to generate splice graphs
sgseq
updated 7.5 years ago by ▴ 260 • written 7.5 years ago by • 0
2
votes
1
reply
2.0k
views
SGSeq error on getBamInfo
SGSeq getBamInfo RNASeq
updated 7.6 years ago by ▴ 260 • written 7.6 years ago by ▴ 40
4
votes
5
replies
2.0k
views
R session crash with SGSeq::convertToTxFeatures
crash SGSeq TxDb makeTxDbFromBiomart TxFeatures
updated 7.6 years ago by ▴ 260 • written 7.6 years ago by ▴ 40
3
votes
3
replies
1.8k
views
question about subsetting SGSeq results by different categories of splice events
sgseq
updated 7.9 years ago by ▴ 260 • written 7.9 years ago by ▴ 10
1
vote
5
replies
1.9k
views
Error when running getSGFeatureCounts
SGSeq software error
updated 8.2 years ago by ▴ 260 • written 8.2 years ago by ▴ 10
0
votes
15
replies
2.8k
views
Issues with SGSeq: analyzeVariants method returns an error...
sgseq analyzevariants
updated 8.4 years ago by ▴ 260 • written 8.6 years ago by ▴ 80
1
vote
15
replies
4.1k
views
Issues with SGSeq: plotFeatures method returns NULL
sgseq
updated 8.6 years ago by ▴ 260 • written 8.7 years ago by ▴ 80
5
votes
16
replies
3.3k
views
Read counts generated by SGSeq are always 0
sgseq splicing alternative splicing
updated 9.2 years ago by ▴ 260 • written 9.2 years ago by ▴ 20
2
votes
2
replies
1.8k
views
SGSeq: class of "sample_info" argument of analyzeFeatures, data.frame or DataFrame!
sgseq
updated 9.2 years ago by ▴ 260 • written 9.2 years ago by ▴ 40
1
vote
6
replies
2.3k
views
Error when predicting features with SGSeq
SGSeq
updated 9.8 years ago by ▴ 90 • written 9.8 years ago by ▴ 150
1
vote
6
replies
2.6k
views
SGSeq error on analyzeFeatures
SGSeq analyzeFeatures Splicing
10.4 years ago Paolo Guarnieri ▴ 20
23 results • Page 1 of 1
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Replies
Comment: Bioconductor 3.20 Release Schedule by randyprice13102000 • 0
This offers much info https://bioconductor.org/checkResults/release/bioc-LATEST/
Comment: Filtering after DESeq by ATpoint ★ 4.8k
The problem is that your prefilter is not group-aware so the behaviour of seeing these sorts of outliers is expected. This is why I always …
Comment: GSEA preranked analysis downstream of DEseq2 by ATpoint ★ 4.8k
All due respect, this is what people do since pvalues exist, so this paper is not a reference, not is this a special score that merits a na…
Comment: Check removeBatchEffect effectiveness by ATpoint ★ 4.8k
> insert size, mean GC, etc... This is not a classical "batch" in the common sense, at least I've never seen this to be corrected for expl…
Answer: Check removeBatchEffect effectiveness by Gordon Smyth 52k
Your call to removeBatchEffect() is not correct because that function does not have an argument called `batch3`, meaning that the batch fac…
Votes
Answer: DiffBind; Error: No sites have activity greater than filter value
DiffBind; Error: No sites have activity greater than filter value
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?
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