Showing : swish • reset
0
votes
3
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290
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Interaction tests and paired interaction tests in swish
swish salmon fishpond
updated 3 months ago by 41k • written 3 months ago by • 0
4
votes
7
replies
1.0k
views
Fishpond/Swish Interaction Test Error
fishpond swish
10 months ago Miguel ▴ 20
0
votes
3
replies
666
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Fishpond with unbalanced dataset
rna-seq salmon fishpond swish
updated 10 months ago by 41k • written 10 months ago by • 0
0
votes
8
replies
1.3k
views
Swish log2FC NA output
swish fishpond DifferentialExpression
21 months ago jvandinter • 0
1
vote
3
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1.6k
views
miRNA differential expression analysis - treat as transcript level?
tximport DESeq2 edgeR swish miRNA
updated 22 months ago by 41k • written 22 months ago by • 0
5
votes
9
replies
1.6k
views
Questions regarding failing tximeta import for swish
swish fishpond GenomicFeatures tximeta
updated 21 months ago by 41k • written 2.1 years ago by • 0
0
votes
8
replies
1.4k
views
swish in a blocking design?
fishpond swish
2.2 years ago msll0802 • 0
1
vote
3
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1.4k
views
Two Genotypes Four Treatments RNA-seq Analysis
salmon rna-seq swish bootstrap fishpond
updated 2.2 years ago by 41k • written 2.2 years ago by • 0
1
vote
1
reply
992
views
Swish with more than two conditions. Add support for contrasts?
tximeta DESeq2 swish fishpond
updated 2.2 years ago by 41k • written 2.2 years ago by ▴ 20
2
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2
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2.0k
views
Volcano plots of DEGs from Swish are weird
DESeq2 fishpond salmon swish
2.6 years ago Qin ▴ 10
0
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6
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1.4k
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Running swish on a non-reference transcript assembly / tximeta import issue
tximeta swish fishpond
updated 3.0 years ago by 41k • written 3.0 years ago by • 0
3
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5
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1.2k
views
Swish (fishpond) scaled counts result
Swish fishpond
3.2 years ago 675743 ▴ 20
3
votes
6
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1.3k
views
Swish with covariate for batch effect
swish fishpond
3.5 years ago thomas.dugedebernonville • 0
3
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2
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864
views
the result of swish function from fishpond package
fishpond swish
updated 3.9 years ago by 41k • written 3.9 years ago by • 0
14 results • Page 1 of 1
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Comment: DESeq2 output used for PCA plot on R studio by Aaliya • 0
I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…
Comment: featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_ge by shuwangxinze1996 • 0
Hello, I used 48 cpus and 320G of memory to run this program. My bam files size are 7-9G, wonder how much CPU and memory is enough?
Comment: DESeq2 output used for PCA plot on R studio by Kevin Blighe ★ 3.9k
This comment helps.
Comment: DESeq2 output used for PCA plot on R studio by Kevin Blighe ★ 3.9k
I am not sure how your comment helps here?
Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR) by Michael Love 41k
> I got many p values that had "1.000000e+00" and padj "1" and stat of "0" when I added the Log threshold of LFC >1 and LFC < -1...is this …
Votes
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
Answer: How to retrieve gene ontology GO class from gene list?
Answer: How to retrieve gene ontology GO class from gene list?
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