Showing : HG38 • reset
0
votes
1
reply
534
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Is SeqSQC compatible with hg38?
SeqSQC hg38
updated 14 months ago by 67k • written 14 months ago by • 0
0
votes
1
reply
940
views
Genic annotations of whole hg38
hg38 genicannotations
updated 3.2 years ago by 67k • written 3.2 years ago by • 0
6
votes
3
replies
1.4k
views
Annotating all SNVs in a genomic area, based on HG38 coordinates
Annotation variation HG38
updated 4.1 years ago by 67k • written 4.1 years ago by • 0
2
votes
4
replies
1.2k
views
Help with Missing Gene from hg38
annotation genome hg38 TxDb.Hsapiens.UCSC.hg38.knownGene BSgenome.Hsapiens.UCSC.hg38
updated 4.9 years ago by ▴ 160 • written 4.9 years ago by • 0
2
votes
5
replies
2.8k
views
getGeneLengthAndGCContent: "zero or more than one input sequence"
edaseq normalization hg38 biomart org.db
updated 7.1 years ago by ▴ 980 • written 7.1 years ago by • 0
0
votes
2
replies
1.7k
views
problem running featurecounts using hg38 in-built annotation
featurecounts hg38
7.6 years ago raf4 ▴ 30
2
votes
7
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3.0k
views
tximport - using hg38 with RefSeq (NM) and Gene Symbol
salmon hg38 tximport tx2gene.csv
updated 7.8 years ago by 43k • written 7.8 years ago by • 0
0
votes
4
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2.5k
views
Rsubread function buildindex cannot handle the GRCh38.p7 reference from NCBI
rsubread ncbi GRCh38 hg38
updated 8.1 years ago by ★ 3.6k • written 8.1 years ago by • 0
1
vote
1
reply
2.4k
views
package ‘BSgenome.Hsapiens.UCSC.hg38’ is not available (for R version 3.1.2)
bsgenome hg38 r version 3.1.2
updated 9.3 years ago by 67k • written 9.3 years ago by • 0
9 results • Page 1 of 1
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Comment: Normalizing batch effects using technical replicates for DGE analysis between tw by Gordon Smyth 52k
Since the intra-block correlation is negative, it would be best to remove `block` from the model. My experience with genetically identical…
Comment: Normalizing batch effects using technical replicates for DGE analysis between tw by anna.cot.anna.cot ▴ 30
Thank you! This is actually quite close to my real dataset. I simplified the names to make it easier as an example, but I have now correcte…
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by Tim Peters ▴ 200
Hi Xiaofei, Is it possible to generate a matrix of beta values or M-values with rownames as probe IDs from this data? If so, cpg.annotate(…
Comment: Normalizing batch effects using technical replicates for DGE analysis between tw by Gordon Smyth 52k
That looks basically correct, although the terms that you are inputing to `makeContrasts` do not match the condition names in the targets f…
Comment: Normalizing batch effects using technical replicates for DGE analysis between tw by James W. MacDonald 67k
Oh, right. There's two ways to enter code. If you are in the middle of a sentence and you want to include a function name, you wrap the nam…
Votes
Answer: nightmare to make custom txdb for genomes from ToxoDB
Comment: nightmare to make custom txdb for genomes from ToxoDB
Answer: Normalizing batch effects using technical replicates for DGE analysis between tw
Answer: nightmare to make custom txdb for genomes from ToxoDB
A: Advice on correcting for batch effect using DESeq2
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