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htseq
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0
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2
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DEXSeqDataSet object DEXSeqDataSetFromHTSeq Error: line number did not have 3 elements
DEXSeq
HTSeq
R
10 months ago • updated 9 months ago
yr542
• 0
1
vote
6
replies
1.1k
views
low counts from microRNA seq
DESeq2
microRNA
HTSeq
18 months ago • updated 17 months ago
abhay.kanodia
• 0
0
votes
1
reply
779
views
Error in DESeqDataSetFromHTSeqCount
DESeq2
RNA-seq
HTseq
DESeqDataSetFromHTSeqCount
updated 18 months ago by
Michael Love
42k • written 19 months ago by
abhay.kanodia
• 0
0
votes
2
replies
775
views
RNA-Seq Reads Count
DESeq2
htseq
DEGseq
RNASeq
read
updated 19 months ago by
Michael Love
42k • written 19 months ago by
CP
• 0
0
votes
2
replies
1.1k
views
Problems while installing HTSeqGenie and gmapR
software error
HTSeq
installation
updated 4.3 years ago by
Martin Morgan
25k • written 4.3 years ago by
eric33150
• 0
12
votes
4
replies
4.5k
views
differential expression analysis of htseq data with edgeR/voom
voom
htseq
edgeR
limma
RNASeq123
updated 5.4 years ago by
Gordon Smyth
51k • written 7.0 years ago by
wd
▴ 30
0
votes
1
reply
1.5k
views
counting with htseq script in DEXSeq
DEXSeq
dexseq_count
htseq
7.3 years ago
mat.lesche
▴ 90
1
vote
6
replies
1.9k
views
Error: could not find function "HTSeqCounts"
HTSeq
HTSeqCounts
Could not find function
DEXSeq
updated 8.2 years ago by
Martin Morgan
25k • written 8.2 years ago by
sakura.nussbaum
▴ 10
8 results • Page
1 of 1
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Replies
Comment: gds in GEOmetadb 2023-06-26 version is empty
by
Frederico Moraes Ferreira
▴ 100
Try axel -n 20 https://gbnci.cancer.gov/geo/GEOmetadb.sqlite.gz
Comment: Most enriched pathway is not expressed when modifying universe parameter
by
James W. MacDonald
66k
The default for `enrichGO` is to subset to those with a p-value<0.05. You don't adjust that default argument, so you shouldn't have any GO …
Answer: In a 3 group DEG analysis with three batches, can I use 1 group in all three bat
by
Michael Love
42k
You can compare A and C thanks to the sharing of samples from B across 1, 2 and 3.
Comment: Most enriched pathway is not expressed when modifying universe parameter
by
adripel
• 0
In the enrichGO results we have significant and non-significant enriched terms that are displayed. So why would an enriched term (significa…
Answer: Design formula, numeric contrast, and lfcshrink in deseq2
by
Michael Love
42k
For questions about how to construct the correct contrasts correspond to particular hypotheses, I recommend consulting with a local statist…
Votes
Comment: Most enriched pathway is not expressed when modifying universe parameter
Time-course, comparison of two groups
Answer: Behaviour of featureCounts when quantifying multi-mapping reads
Answer: GESA with certain gene list returns no result with human genom, but many result
Answer: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
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