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R
•
reset
0
votes
3
replies
2.0k
views
DESeq2 dependency issues
r
8.5 years ago
Alexistbrown17
• 0
0
votes
0
replies
1.5k
views
Job:
Research Scientist for Bioinformatics, University of Minnesota
R
bioconductor
next-generation sequencing
Job
8.5 years ago
mmacchie
• 0
1
vote
1
reply
875
views
Sorting the VIEW index in ascending/descending order
R
diffbind
updated 8.5 years ago by
Marcel Ramos
700 • written 8.6 years ago by
rbronste
▴ 60
0
votes
2
replies
3.0k
views
Biostrings: retrieve 3'UTR sequence with Transcript
R
Biostrings
sequence
updated 8.6 years ago by
Mike Smith
★ 6.6k • written 8.6 years ago by
aspenaure
• 0
2
votes
2
replies
861
views
Question about sharing a function in the R package
R
updated 8.6 years ago by
Steve Lianoglou
★ 13k • written 8.6 years ago by
Jing Wang
▴ 10
6
votes
3
replies
7.4k
views
Heatmap Plotting in R
heatmap
R
bioconductor
10.2 years ago • updated 8.6 years ago
Deepak Tanwar
▴ 10
0
votes
3
replies
2.1k
views
mzR failure installation
mzr
r
installation
updated 8.6 years ago by
Laurent Gatto
1.6k • written 8.6 years ago by
microalgues
• 0
1
vote
1
reply
2.7k
views
QIIME, R and bioconducter
R
qiime
updated 8.6 years ago by
James W. MacDonald
68k • written 8.6 years ago by
trichter
• 0
0
votes
0
replies
3.0k
views
How to normalize-transform rsem.genes.results of TCGA RNA-seq v2?
tcga
rnaseq
rsem
R
normalization
8.6 years ago
panagiotis.mokos
▴ 40
0
votes
5
replies
2.4k
views
DESeq2 download errors R3.3.3 OS10.5.5
bioconductor
r
deseq2
updated 8.6 years ago by
Martin Morgan
25k • written 8.6 years ago by
tscharschmidt
• 0
0
votes
0
replies
1.8k
views
Finding candidate binding sites for RNA binding proteins in R
R
bioconductor
RNA
mRNA
RNA binding proteins
8.6 years ago
Walter F. Baumann
▴ 10
2
votes
6
replies
2.8k
views
DESeq2 model design with unequal number of time points
deseq2
multiple time points
R
updated 8.6 years ago by
Ryan C. Thompson
★ 7.9k • written 8.6 years ago by
Dmitry
• 0
0
votes
0
replies
929
views
omicade4:Can not use plotVar to label variable genes
omicade4
R
plotVar
8.6 years ago
weiiioyo
• 0
1
vote
1
reply
1.2k
views
Error in valcano plot
R
8.6 years ago
baranikumar22
• 0
3
votes
2
replies
1.6k
views
Troubles with new version of GenomicFeatures(?)
software error
R
bioconductor
genomicfeatures
error message
8.6 years ago
Walter F. Baumann
▴ 10
0
votes
2
replies
849
views
Creating array with lists as elements
R
updated 8.6 years ago by
Martin Morgan
25k • written 8.6 years ago by
Haiying.Kong
▴ 110
2
votes
4
replies
2.2k
views
How to render summary list for `GRangesList` by using `SummarizedExperiment` package?
r
summarizedexperiment
grangeslist
8.6 years ago
Jurat Shahidin
▴ 80
1
vote
2
replies
2.4k
views
how to perform pre ranked GSEA in R?
r
microarray
statistics
GSEA
updated 8.6 years ago by
predeus
• 0 • written 10.6 years ago by
Nemo
▴ 80
0
votes
2
replies
1.6k
views
Why all of the logFC are NA in my edgeDF2
R
edger
systemPipeR
8.6 years ago
xuertowong
• 0
1
vote
7
replies
3.9k
views
Linear regression model in RNA seq
deseq2
limma
R
rnaseq
8.6 years ago
Karl Fees
▴ 10
0
votes
3
replies
1.7k
views
Boxplot for Raw Data
r
updated 8.6 years ago by
rreck
▴ 20 • written 8.6 years ago by
shawinkarim
• 0
2
votes
1
reply
937
views
virtualArray installation problem
R
updated 8.6 years ago by
Martin Morgan
25k • written 8.6 years ago by
m.shahdoost
• 0
0
votes
0
replies
1.3k
views
cummeRbund error dealing with cuffdiff results
rnaseq
cummerbund
R
software error
8.6 years ago
wastdc
• 0
0
votes
1
reply
1.4k
views
Whole exomes: number of genes, polymorphism
whole exome sequence
R
bioconductor
exome
8.7 years ago • updated 8.6 years ago
bioinf
▴ 10
3
votes
3
replies
2.2k
views
Comparing two RNAseq experiments using summarizeOverlaps
summarizeoverlaps
R
bioconductor
rnaseq
rna-seq
updated 8.6 years ago by
Hervé Pagès
16k • written 8.6 years ago by
Walter F. Baumann
▴ 10
0
votes
0
replies
1.7k
views
Cytofkit package R: Error in readRDS(pfile)
cytofkit
R
8.6 years ago
anouk
• 0
0
votes
0
replies
1.6k
views
Job:
Bioinformaticist, Research Programmer
R
genomics
statistics
Job
8.6 years ago
radel
• 0
0
votes
0
replies
783
views
GENESIS examples dataset not found?
bioconductor
R
8.6 years ago
tjzhou
• 0
3
votes
4
replies
2.9k
views
DiffBind: error with dba(sampleSheet="samples.csv")
R
DiffBind
updated 8.7 years ago by
Rory Stark
★ 5.2k • written 8.7 years ago by
hemantgujar14
• 0
0
votes
3
replies
5.1k
views
ERROR: dependency 'AnnotationDbi' is not available for package 'GO.db'
bioconductor
R
go.db
annotationdbi
dependency
8.7 years ago
Sidi.Ma
• 0
2
votes
13
replies
4.1k
views
problems filtering antigenomic probes from HTA 2.0
pd.hta.2.0
R
9.2 years ago • updated 8.7 years ago
s.munster
▴ 40
0
votes
1
reply
1.7k
views
Metagene: file import and aesthetic customization
metagene
R
ggplot2
updated 8.7 years ago by
Charles Joly Beauparlant
▴ 170 • written 8.7 years ago by
JunLVI
▴ 40
0
votes
1
reply
1.5k
views
Installation of "flowWorkspace" on Ubuntu fails
bioconductor
R
flowcytometry
8.7 years ago
mo
• 0
1
vote
5
replies
2.9k
views
Unable to install scde in ubuntu 16.04 , this is what happens when I install scde
scde
ubuntu
dependencies
R
updated 8.7 years ago by
Martin Morgan
25k • written 8.7 years ago by
aditya531996
• 0
1
vote
2
replies
1.2k
views
Removinf Batch effect in EDGE-R
R
edger
batch effect
updated 8.7 years ago by
Aaron Lun
★ 29k • written 8.7 years ago by
kaihami
▴ 40
0
votes
1
reply
1.5k
views
seqlm installation error
software error
R
installation
updated 8.7 years ago by
Marcel Ramos
700 • written 8.7 years ago by
niutster
• 0
3
votes
6
replies
2.3k
views
Whole exome: BAM statistics and other relevant information
rsamtools
whole exome sequence
bam
exome
R
8.7 years ago
bioinf
▴ 10
0
votes
5
replies
2.2k
views
xps package - import.expr.scheme help
xps
root
R
affy
updated 8.7 years ago by
cstrato
★ 3.9k • written 8.7 years ago by
jordansquair
• 0
4
votes
3
replies
6.4k
views
Splitting a GRanges object into List of GRange objects by position.
R
granges
subsett
grangeslist
group
updated 8.7 years ago by
Mike Smith
★ 6.6k • written 8.7 years ago by
RichardJActon
▴ 50
1
vote
4
replies
5.9k
views
do.call error "second argument must be a list" with GRanges object [closed]
r
error handling
8.7 years ago
Jurat Shahidin
▴ 80
0
votes
0
replies
1.1k
views
DESeq: How are condition A and B assigned
deseq
r
8.7 years ago
arielle
• 0
1
vote
2
replies
3.8k
views
Perform a function on several FASTA files R (Biostrings) Error in Call2(new_input_ExternalFilePtr", fp, PACKAGE = "Biostrings")
biostrings
fasta
R
Call2
updated 8.7 years ago by
Martin Morgan
25k • written 8.7 years ago by
kevin.debray
• 0
0
votes
0
replies
1.3k
views
OmicCircos Error in Colnames attribute mus be the same length as the vector
r
omiccircos
8.7 years ago
theobroma22
▴ 10
0
votes
1
reply
1.6k
views
ALL Library and ALL Data Set error
bioconductor
R
library
software error
ALL library
8.7 years ago
alyssa.ylescu
• 0
1
vote
4
replies
2.0k
views
How to extract common genes that are DE in each comparisons?
limma
bioconductor
affymetrix microarrays
R
8.7 years ago
rkp
• 0
0
votes
3
replies
1.3k
views
Custom cdf and Ensemble
customcdf
R
microarray
updated 8.7 years ago by
James W. MacDonald
68k • written 8.7 years ago by
12021560-002
• 0
0
votes
0
replies
1.4k
views
Job:
postdoctoral position in Computational Biology/Statistics/Evolutionary Biology in Madrid, Spain
bioconductor
R
jobs
C++
simulation
Job
8.8 years ago
Ramon Diaz-Uriarte
▴ 70
0
votes
6
replies
9.7k
views
No gene can be mapped error with clusterprofiler
clusterprofiler
r
updated 21 months ago by
Guido Hooiveld
★ 4.1k • written 8.8 years ago by
prp291
• 0
28
votes
6
replies
47k
views
DESeq2: Is it possible to convert read counts to expression values via TPM and return these values?
deseq2
r
updated 3.5 years ago by
Hongwei
▴ 20 • written 8.8 years ago by
tombernardryan
▴ 60
1
vote
1
reply
3.8k
views
Q value obtained from QValue package is lower than P value?
qvalue
pvalue
r
multiple comparisons
updated 8.8 years ago by
Storey, John D.
▴ 100 • written 8.8 years ago by
tombernardryan
▴ 60
1,163 results • Page
17 of 24
Recent ...
Replies
Comment: Memory error while running alignments
by
Erik Wright
▴ 150
How much memory is available on the computer? A distance matrix of 50k sequences requires at least 50k*50k/2 * 8 bytes = 10GB, assuming the…
Comment: NA values for DESeq2 p-values and adjusted p-values using large sample sizes
by
Gabriel
• 0
Thank you very much for the reply. However, none of these three options seems to fit: 1) The genes for which NA appears do not have all 0 …
Comment: "organism" missing in BSgenome.Hsapiens.UCSC.hg38 slotNames
by
ubjw24
• 0
Thank you for your replies. I got the problem solved by installing mutSignature with this line: ``` devtools::install_github("dami82/mutS…
Comment: DESeq2 design for haplotype MPRA
by
Rita
• 0
Thank you very much, I appreciate it!
Answer: DESeq2 design for haplotype MPRA
by
Michael Love
43k
> My goal is to identify which non-reference haplotypes are differentially active compared to the corresponding ref/ref haplotype within ea…
Votes
Comment: Check removeBatchEffect effectiveness
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset?
Answer: DESeq2 design for haplotype MPRA
A: Different logFC (log2foldchange) values for genes from limma-voom and other too
Comment: Check removeBatchEffect effectiveness
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