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SGSeq
•
reset
0
votes
0
replies
105
views
how to do Differential splicing from SGSeq analysis
DEXSeq
SGSeq
4 weeks ago • updated 27 days ago
Sara
• 0
0
votes
1
reply
169
views
The issue with SGSeq_analyzeFeatures() returns errors on BAM files
SGSeq
updated 5 weeks ago by
kamryncole1963
• 0 • written 6 weeks ago by
Sara
• 0
0
votes
0
replies
190
views
Could SGSeq utilizes "ts" tag produced from minimap2 other than "XS" tag?
XS-tag
SplicedAlignment
SGSeq
minimap2
12 weeks ago
jk
• 0
0
votes
0
replies
281
views
SGSeq how export PSI values for each typr of splice variant
SGSeq
6 months ago
Alison
• 0
2
votes
4
replies
1.2k
views
How should I handle read counts derived from SGSeq when they were passed to limma/edgeR
SGSeq
limma
edgeR
updated 3.6 years ago by
Leonard Goldstein
▴ 220 • written 3.6 years ago by
zliu
▴ 10
0
votes
1
reply
735
views
Extract sample information from own BAM files using SGSeq
SGSeq
updated 4.5 years ago by
Leonard Goldstein
▴ 220 • written 4.5 years ago by
anjanhazra
• 0
3
votes
3
replies
904
views
Custom gene annotations for SGSeq
sgseq
alternative splicing
rna seq
updated 4.5 years ago by
Leonard Goldstein
▴ 220 • written 4.5 years ago by
116100016
• 0
0
votes
2
replies
793
views
using only uniquely-mapping reads for alternative splicing using SGSeq
rna seq
SGSeq
Alternative splicing
updated 4.6 years ago by
Leonard Goldstein
▴ 220 • written 4.6 years ago by
116100016
• 0
0
votes
0
replies
863
views
How to run my own data using SGSeq?
annotation
sgseq
updated 5.3 years ago by
shepherl
3.9k • written 5.3 years ago by
huizeng
• 0
0
votes
6
replies
1.5k
views
Which sequencing parameters are required for SGSeq analysis of splice events?
rna-seq
alternative splicing
SGSeq
5.6 years ago
andrea.bast
• 0
0
votes
1
reply
937
views
SGFeatureCounts function in SGSeq package failed to generate splice graphs
sgseq
updated 6.6 years ago by
Leonard Goldstein
▴ 220 • written 6.6 years ago by
mgdrnl
• 0
1
vote
1
reply
1.6k
views
SGSeq error on getBamInfo
SGSeq
getBamInfo
RNASeq
updated 6.6 years ago by
Leonard Goldstein
▴ 220 • written 6.6 years ago by
oolongoni
▴ 10
4
votes
5
replies
1.6k
views
R session crash with SGSeq::convertToTxFeatures
crash
SGSeq
TxDb
makeTxDbFromBiomart
TxFeatures
updated 6.7 years ago by
Leonard Goldstein
▴ 220 • written 6.7 years ago by
oolongoni
▴ 10
10
votes
11
replies
1.9k
views
SGSeq: moving toward diffex from SGSeq analysis
sgseq
rnaseq
updated 4 days ago by
Sara
• 0 • written 6.8 years ago by
Sylvain Foisy
▴ 80
0
votes
3
replies
1.2k
views
question about subsetting SGSeq results by different categories of splice events
sgseq
updated 6.9 years ago by
Leonard Goldstein
▴ 220 • written 6.9 years ago by
amanda.joy.price
• 0
0
votes
5
replies
1.6k
views
Error when running getSGFeatureCounts
SGSeq
software error
updated 7.3 years ago by
Leonard Goldstein
▴ 220 • written 7.3 years ago by
jpromero
• 0
0
votes
15
replies
2.1k
views
Issues with SGSeq: analyzeVariants method returns an error...
sgseq
analyzevariants
updated 7.5 years ago by
Leonard Goldstein
▴ 220 • written 7.6 years ago by
Sylvain Foisy
▴ 80
1
vote
15
replies
3.3k
views
Issues with SGSeq: plotFeatures method returns NULL
sgseq
updated 7.6 years ago by
Leonard Goldstein
▴ 220 • written 7.8 years ago by
Sylvain Foisy
▴ 80
5
votes
8
replies
3.1k
views
Issues with SGSeq: analyzeFeatures() returns errors on BAM files
sgseq
updated 4.4 years ago by
anjanhazra
• 0 • written 7.8 years ago by
Sylvain Foisy
▴ 80
5
votes
16
replies
2.7k
views
Read counts generated by SGSeq are always 0
sgseq
splicing
alternative splicing
updated 8.2 years ago by
Leonard Goldstein
▴ 220 • written 8.2 years ago by
vakul.mohanty
▴ 20
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
Leonard Goldstein
▴ 220 • written 8.2 years ago by
Chao-Jen Wong
▴ 40
1
vote
6
replies
1.9k
views
Error when predicting features with SGSeq
SGSeq
updated 8.8 years ago by
Leonard Goldstein
▴ 80 • written 8.8 years ago by
Helen Zhou
▴ 150
1
vote
6
replies
2.2k
views
SGSeq error on analyzeFeatures
SGSeq
analyzeFeatures
Splicing
9.4 years ago
Paolo Guarnieri
▴ 20
23 results • Page
1 of 1
Recent ...
Replies
Comment: Volcano plot of scRNA-seq data not "centered"
by
ATpoint
★ 4.2k
My comment was generic. If your experiment causes drastic shifts then the situation might be different. The advise is the same: Try to use …
Comment: conumee with Infinium MethylationEPIC v2.0
by
Maximus
• 0
Hi Sole, If there is a combined mixture of MSet of 450K, EPIC and EPICv2, how should I create an annotation object? I tried to create anno…
Comment: Volcano plot of scRNA-seq data not "centered"
by
tjl
• 0
Thank you both. The code is below, simplified a bit for simplicity. ATpoint, your suggestion re: the top 20% of genes by baseMean makes me …
Comment: Cannot install oligo on Fedora
by
James W. MacDonald
66k
Wait a minute. The `oligo` package is *supposed to* be using `zlibbioc`, but apparently it is not. I get the same thing as you do, where it…
Comment: Cannot install oligo on Fedora
by
James W. MacDonald
66k
There is the `zlibbioc` package that provides the headers for zlib 1.2.5, that I think you should be able to use, although that would requi…
Votes
DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Gene symbol
DESeq2 swap ensembl gene id rownames with gene symbol column
A: DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Ge
DESeq2: add annotations (from data frame) to DESeqDataSet
Add new columns to DESeqResults from text file by matching rownames.
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