Showing : rpkm • reset
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Tutorial: Read data file containing both counts and annotation into edgeR
rpkm edgeR featureCounts
15 months ago • updated 14 months ago Gordon Smyth 51k
1
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4
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5.0k
views
Conversion from FPKM,RPKM to tpm
DESEQ2 fpkm rpkm tpm
3.2 years ago • updated 3.1 years ago Sandhiya • 0
9
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10
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8.3k
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How to get gene length for RPKM directly from DGEList object in latest edgeR?
Normalization edgeR RPKM
updated 20 months ago by ▴ 20 • written 4.1 years ago by ▴ 10
1
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5
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1.7k
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bug in "dispersion" argument in edgeR - rpkmByGroup
edger rpkm
updated 5.4 years ago by • 0 • written 5.4 years ago by • 0
7
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3
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3.8k
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Log2(RPKM) counts in Bioconductor
rpkm scater calcaverage R expression
updated 5.6 years ago by ★ 28k • written 5.6 years ago by ▴ 10
2
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1
reply
1.5k
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Bioconductor with RPKM counts or Raw counts
singlecellexperiment rpkm normalization qc
updated 5.6 years ago by ★ 28k • written 5.6 years ago by ▴ 10
1
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1
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1.2k
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Generating RPKM data from dds (DESeq2 pipeline)
deseq2 dds RPKM
updated 6.6 years ago by 42k • written 6.6 years ago by • 0
32
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16
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19k
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difference among tximport scaledTPM, lengthScaledTPM and the original TPM output by salmon/kallisto
tximport deseq2 TPM RPKM rnaseq
updated 6.6 years ago by ▴ 20 • written 8.4 years ago by ▴ 200
3
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1
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1.3k
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RMS question in MEDIPS
RMS RPKM MEDIPS
updated 6.7 years ago by ▴ 570 • written 6.7 years ago by ▴ 10
2
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14
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8.5k
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Calculating rpkm from counts data?
r featurecounts rpkm tpm edger
updated 21 months ago by ▴ 20 • written 7.3 years ago by ▴ 120
3
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2
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1.8k
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AnnotationHub: A RPKM data.frame of Epigenomics RoadMap Project seems strange
annotationhub roadmap project rpkm data.frame
8.1 years ago wcstcyx ▴ 30
4
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2
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5.6k
views
How to run the rpkm function of edgeR
edger rpkm
updated 8.7 years ago by ★ 28k • written 8.7 years ago by ▴ 20
4
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10
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5.7k
views
Finding gene lengths of mm10 to calculate rpkm from count matrix of rna-seq dataset
rpkm gene length count matrix edgeR rsubread
9.1 years ago AB ▴ 110
4
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1
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2.5k
views
Get source code for rpkm() function in edgeR
edgeR rpkm source code
updated 9.6 years ago by 25k • written 9.6 years ago by ▴ 10
7
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4
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2.8k
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Gene expression between two copies of same gene:use counts or RPKM or FPKM?
count rnaseq rpkm fpkm edgeR
updated 9.6 years ago by 51k • written 9.6 years ago by ▴ 10
3
votes
3
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7.4k
views
Find DEG from RNA-seq: What if have only RPKM data?
deg rna-seq rpkm
updated 9.7 years ago by ▴ 370 • written 9.7 years ago by • 0
0
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5
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2.8k
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count tables created with easyRNASeq and the rpkm() function from edgeR
easyrnaseq edger rpkm
updated 9.8 years ago by ▴ 320 • written 9.8 years ago by ▴ 80
4
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4
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21k
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edgeR rpkm function
edger rpkm
updated 20 months ago by 51k • written 9.8 years ago by ▴ 30
3
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2
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16k
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how to calculate gene length to be used in rpkm() in edgeR
RNASeq edgeR rpkm
updated 19 months ago by 51k • written 10.6 years ago by ★ 1.0k
2
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1
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1.7k
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Shoud I use "aligned reads" or total reads (aligned + unassigned) to the RPKM value?
rnaseq R rsubread rpkm
updated 10.1 years ago by 67k • written 10.1 years ago by • 0
20 results • Page 1 of 1
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Answer: DE analysis on Single cell RNA Seq time course data (using pseudotime) with 5 di by James W. MacDonald 67k
The two contrasts at the bottom are identical but for the sign of the logFC, so you should expect the same results (except for flipped sign…
Comment: Identical samples after deseq2 batch effect removal by Michael Love 42k
Oh, i didn't realize there is another method in the mix here. I would not necessarily trust this "batch correction" method, and suspect o…
Comment: Identifying potentially associated gene set to drug response using GSVA by Kent • 0
Hi @robertc thanks for the reply. I should have explained to you the context first. I am testing over a hundred drugs on patient samples (s…
Answer: BiocNeighbours Utility for k-Nearest Neighbour Classification by James W. MacDonald 67k
You can easily answer this question yourself. ``` > library(BiocPkgTools) Loading required package: htmlwidgets > depdf <- buildPkgDe…
Answer: HilBertVis install error by James W. MacDonald 67k
It appears you have compiler flags set that preclude you from compiling (-Werror=format-security). If I install `HilbertVis` on my work box…
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