Showing : rpkm • reset
4
votes
10
replies
5.2k
views
Finding gene lengths of mm10 to calculate rpkm from count matrix of rna-seq dataset
rpkm gene length count matrix edgeR rsubread
8.5 years ago AB ▴ 110
0
votes
5
replies
2.6k
views
count tables created with easyRNASeq and the rpkm() function from edgeR
easyrnaseq edger rpkm
updated 9.2 years ago by ▴ 320 • written 9.2 years ago by ▴ 80
32
votes
16
replies
17k
views
difference among tximport scaledTPM, lengthScaledTPM and the original TPM output by salmon/kallisto
tximport deseq2 TPM RPKM rnaseq
updated 6.0 years ago by ▴ 20 • written 7.8 years ago by ▴ 190
4
votes
4
replies
20k
views
edgeR rpkm function
edger rpkm
updated 13 months ago by 50k • written 9.2 years ago by ▴ 30
2
votes
14
replies
7.5k
views
Calculating rpkm from counts data?
r featurecounts rpkm tpm edger
updated 14 months ago by • 0 • written 6.7 years ago by ▴ 110
9
votes
10
replies
6.8k
views
How to get gene length for RPKM directly from DGEList object in latest edgeR?
Normalization edgeR RPKM
updated 13 months ago by • 0 • written 3.5 years ago by ▴ 10
3
votes
2
replies
16k
views
how to calculate gene length to be used in rpkm() in edgeR
RNASeq edgeR rpkm
updated 12 months ago by 50k • written 10.0 years ago by ★ 1.0k
3
votes
1
reply
1.2k
views
RMS question in MEDIPS
RMS RPKM MEDIPS
updated 6.2 years ago by ▴ 570 • written 6.2 years ago by ▴ 10
1
vote
1
reply
984
views
Generating RPKM data from dds (DESeq2 pipeline)
deseq2 dds RPKM
updated 6.0 years ago by 41k • written 6.0 years ago by • 0
7
votes
3
replies
3.2k
views
Log2(RPKM) counts in Bioconductor
rpkm scater calcaverage R expression
updated 5.1 years ago by ★ 28k • written 5.1 years ago by ▴ 10
2
votes
1
reply
1.3k
views
Bioconductor with RPKM counts or Raw counts
singlecellexperiment rpkm normalization qc
updated 5.1 years ago by ★ 28k • written 5.1 years ago by ▴ 10
1
vote
5
replies
1.4k
views
bug in "dispersion" argument in edgeR - rpkmByGroup
edger rpkm
updated 4.8 years ago by • 0 • written 4.8 years ago by • 0
1
vote
4
replies
4.3k
views
Conversion from FPKM,RPKM to tpm
DESEQ2 fpkm rpkm tpm
2.6 years ago Sandhiya • 0
2
votes
1
reply
1.6k
views
Shoud I use "aligned reads" or total reads (aligned + unassigned) to the RPKM value?
rnaseq R rsubread rpkm
updated 9.5 years ago by 65k • written 9.5 years ago by • 0
3
votes
3
replies
6.8k
views
Find DEG from RNA-seq: What if have only RPKM data?
deg rna-seq rpkm
updated 9.1 years ago by ▴ 360 • written 9.1 years ago by • 0
7
votes
4
replies
2.5k
views
Gene expression between two copies of same gene:use counts or RPKM or FPKM?
count rnaseq rpkm fpkm edgeR
updated 9.0 years ago by 50k • written 9.0 years ago by ▴ 10
4
votes
1
reply
2.4k
views
Get source code for rpkm() function in edgeR
edgeR rpkm source code
updated 9.0 years ago by 25k • written 9.0 years ago by ▴ 10
4
votes
2
replies
5.2k
views
How to run the rpkm function of edgeR
edger rpkm
updated 8.2 years ago by ★ 28k • written 8.2 years ago by ▴ 20
3
votes
2
replies
1.6k
views
AnnotationHub: A RPKM data.frame of Epigenomics RoadMap Project seems strange
annotationhub roadmap project rpkm data.frame
7.5 years ago wcstcyx ▴ 30
0
votes
0
replies
923
views
Tutorial: Read data file containing both counts and annotation into edgeR
rpkm edgeR featureCounts
7 months ago Gordon Smyth 50k
20 results • Page 1 of 1
Recent ...
Replies
Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k
This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…
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?
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?
Awards • All
Supporter to JKim • 0
Popular Question to Gordon Smyth 50k
Popular Question to Chris • 0
Supporter to Jonathan ▴ 10
Popular Question to Bine ▴ 40
Locations • All
France, 8 minutes ago
San Diego, 17 minutes ago
China, 17 minutes ago
India, 37 minutes ago
WEHI, Melbourne, Australia, 54 minutes ago
Traffic: 681 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6