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Number of rows in DESeq2 output (.csv) is not the same as number of rows in the results(dds) dataframe
output
difference
2.6 years ago
Jamie
• 0
0
votes
3
replies
2.2k
views
DECIPHER save alignement in outputs
msa
decipher
output
prettyPrint
updated 4.4 years ago by
UBod
▴ 300 • written 4.5 years ago by
matamunee
• 0
3
votes
6
replies
1.9k
views
Interpreting the output of score test using GENESIS
genesis
output
score
updated 5.4 years ago by
Stephanie M. Gogarten
▴ 890 • written 5.4 years ago by
lassana.a.samarakoon
▴ 10
0
votes
3
replies
1.6k
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MEDIPS - Annotation output explanation
MEDIPS
Output
6.8 years ago
vjain
• 0
2
votes
8
replies
4.7k
views
How to extract the voom normalized value for each observation?
voomWithQualityWeights
output
updated 7.2 years ago by
Gordon Smyth
52k • written 7.2 years ago by
harelarik
▴ 60
1
vote
1
reply
2.0k
views
limma: The topTable function implementation when outputin the differential expression results from RNA-seq dataset?
limma
voom
edgeR
toptable
output
updated 7.6 years ago by
Aaron Lun
★ 28k • written 7.6 years ago by
heikki.sarin
▴ 10
2
votes
9
replies
4.0k
views
msa alignement: sorted sequences by sequence name
msa
alignement
output
sorted
8.1 years ago
Olorin
▴ 50
2
votes
2
replies
1.6k
views
Cytofkit - Trouble with writing files after performing the analysis
cytofkit
cytof
write.csv
output
updated 8.3 years ago by
chen_hao
▴ 30 • written 8.3 years ago by
cjackson13
• 0
0
votes
5
replies
6.8k
views
Adding information to the DESeq2 output file (gene name and expression levels for each sample(
deseq2
gene
columns
output
updated 9.3 years ago by
Michael Love
43k • written 9.3 years ago by
amyfm
▴ 10
9 results • Page
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Comment: Differential variance analysis - can i use deseq2
by
Michael Love
43k
VST is valid for working with expression data on a variance stabilized scale, so yes. There are many papers that have used VST and then com…
Answer: Use of limma R package with targeted proteomics for DE analysis
by
Gordon Smyth
52k
It is usual to analyse log normalized values from Olink in limma. Just a straight log transformation should be sufficient. We find that `tr…
Comment: WGCNA
by
pammelala304
• 0
Thank you for your time and effort. I am so grateful! Play game [block blast](https://blockblastpuzzle.io) free.
Comment: Does anyone have the command to download all of the core_nt using blast_db_get()
by
Matthew Thornton
▴ 380
Ok. So I guess the core_nt is over 300Gb compressed. I can do it, but maybe it is better to just use ncbi-tools over the internet and just…
Comment: normalizatino of dna methylation EPIC data
by
user_bioinfo
• 0
yes actually that's why I did, and its all good! thank you for your response
Votes
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
Answer: normalizatino of dna methylation EPIC data
Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
Suggesting changing the "reply-to" field to the mailing list address.
Answer: UniProt.ws query for single UniRef90 ID takes several minutes
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