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sgseq
•
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0
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63
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how to do Differential splicing from SGSeq analysis
DEXSeq
SGSeq
7 days ago • updated 2 days ago
Sara
• 0
0
votes
1
reply
133
views
The issue with SGSeq_analyzeFeatures() returns errors on BAM files
SGSeq
updated 15 days ago by
kamryncole1963
• 0 • written 20 days ago by
Sara
• 0
0
votes
0
replies
155
views
Could SGSeq utilizes "ts" tag produced from minimap2 other than "XS" tag?
XS-tag
SplicedAlignment
SGSeq
minimap2
8 weeks ago
jk
• 0
0
votes
0
replies
251
views
SGSeq how export PSI values for each typr of splice variant
SGSeq
5 months ago
Alison
• 0
2
votes
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
Leonard Goldstein
▴ 200 • written 3.6 years ago by
zliu
▴ 10
0
votes
1
reply
717
views
Extract sample information from own BAM files using SGSeq
SGSeq
updated 4.4 years ago by
Leonard Goldstein
▴ 200 • written 4.4 years ago by
anjanhazra
• 0
3
votes
3
replies
879
views
Custom gene annotations for SGSeq
sgseq
alternative splicing
rna seq
updated 4.4 years ago by
Leonard Goldstein
▴ 200 • written 4.4 years ago by
116100016
• 0
0
votes
2
replies
776
views
using only uniquely-mapping reads for alternative splicing using SGSeq
rna seq
SGSeq
Alternative splicing
updated 4.5 years ago by
Leonard Goldstein
▴ 200 • written 4.5 years ago by
116100016
• 0
0
votes
0
replies
849
views
How to run my own data using SGSeq?
annotation
sgseq
updated 5.2 years ago by
shepherl
3.8k • written 5.2 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
5.5 years ago
andrea.bast
• 0
0
votes
1
reply
920
views
SGFeatureCounts function in SGSeq package failed to generate splice graphs
sgseq
updated 6.5 years ago by
Leonard Goldstein
▴ 200 • written 6.5 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
▴ 200 • 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 6.6 years ago by
Leonard Goldstein
▴ 200 • written 6.6 years ago by
oolongoni
▴ 10
8
votes
6
replies
1.7k
views
SGSeq: moving toward diffex from SGSeq analysis
sgseq
rnaseq
updated 12 hours ago by
Leonard Goldstein
▴ 200 • written 6.7 years ago by
Sylvain Foisy
▴ 80
0
votes
3
replies
1.1k
views
question about subsetting SGSeq results by different categories of splice events
sgseq
updated 6.9 years ago by
Leonard Goldstein
▴ 200 • 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 7.2 years ago by
Leonard Goldstein
▴ 200 • written 7.2 years ago by
jpromero
• 0
0
votes
15
replies
2.1k
views
Issues with SGSeq: analyzeVariants method returns an error...
sgseq
analyzevariants
updated 7.4 years ago by
Leonard Goldstein
▴ 200 • written 7.6 years ago by
Sylvain Foisy
▴ 80
1
vote
15
replies
3.2k
views
Issues with SGSeq: plotFeatures method returns NULL
sgseq
updated 7.6 years ago by
Leonard Goldstein
▴ 200 • written 7.7 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 7.7 years ago by
Sylvain Foisy
▴ 80
5
votes
16
replies
2.6k
views
Read counts generated by SGSeq are always 0
sgseq
splicing
alternative splicing
updated 8.2 years ago by
Leonard Goldstein
▴ 200 • 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
▴ 200 • 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
2.1k
views
SGSeq error on analyzeFeatures
SGSeq
analyzeFeatures
Splicing
9.4 years ago
Paolo Guarnieri
▴ 20
23 results • Page
1 of 1
Recent ...
Replies
Answer: log2FoldChange value is way too different when compared with counts(dds)
by
Michael Love
41k
This has been asked before, but with a multi factor design, the LFC for coefficient X adjust for the others, in a way that is often hard to…
Answer: Get genomic coordinates of CpGs sites (chromosomes, genomic position)
by
James W. MacDonald
65k
You don't say what array that is, so I will guess. ``` > library(IlluminaHumanMethylationEPICanno.ilm10b4.hg19) > Locations DataFrame…
Answer: SGSeq: moving toward diffex from SGSeq analysis
by
Leonard Goldstein
▴ 200
`vid` and `eid` are unique identifiers for splice variants and splicing events respectively. They are analogous to exon bin and gene identi…
Comment: Help with error using camera() in limma
by
Chris
• 0
Thanks James! I fixed the error. I try gene symbol instead of entrez and it worked.
Comment: limma for gene expression analysis with big and unbalanced sample size
by
XW
• 0
Could you explain more about the comment "there are no problems with using limma for unbalanced data sets" ? thanks.
Votes
SPIA plotP giving error
Answer: Fold change calculation in Diffbind vs. DESEQ2?
C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB
C: Extremely big genes in annotation TxDb packages
Make custom Txdb class objects from Txdb
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