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Sequencing
•
reset
0
votes
14
replies
3.4k
views
Trimming of partial adaptor sequences
Sequencing
Cancer
Biostrings
Sequencing
Cancer
Biostrings
10.7 years ago
Taylor, Sean D
▴ 250
0
votes
9
replies
2.5k
views
MEDIPS: how does MEDIPS define a methylated region / cluster?
Sequencing
MEDIPS
updated 9.5 years ago by
mengru1223
• 0 • written 9.6 years ago by
Guest User
★ 13k
0
votes
4
replies
1.7k
views
easyRNASeq error
Sequencing
Alignment
Annotation
Organism
BSgenome
biomaRt
BSgenome
easyRNASeq
Sequencing
12.1 years ago
delhomme@embl.de
★ 1.2k
0
votes
5
replies
2.0k
views
downloading different kinds of microarray data
Sequencing
Microarray
Genetics
Annotation
gpls
convert
GEOquery
GEOmetadb
Sequencing
gpls
updated 13.6 years ago by
Alex Levitchi
▴ 30 • written 13.6 years ago by
Sean Davis
21k
0
votes
6
replies
1.5k
views
need help for the study design of a RNA-Seq project
SNP
Sequencing
SNP
Sequencing
11.0 years ago
shirley zhang
★ 1.0k
0
votes
10
replies
1.9k
views
Statistics for next-generation sequencing transcriptomics
Sequencing
SAGE
Sequencing
SAGE
updated 14.7 years ago by
Margaret Taub
▴ 10 • written 14.7 years ago by
michael watson IAH-C
★ 3.4k
2
votes
3
replies
1.6k
views
SVA batch effects for different technologies
normalization
deseq2
sequencing
sva
8.8 years ago
marcin.bazyliszek
• 0
0
votes
4
replies
1.5k
views
Converting data into MAlist to use in LIMMA
Sequencing
Microarray
Annotation
Normalization
affy
convert
Sequencing
Microarray
affy
updated 14.1 years ago by
J.delasHeras@ed.ac.uk
★ 1.9k • written 14.1 years ago by
Aubin-Horth Nadia
▴ 60
0
votes
5
replies
2.2k
views
getting sample size for RNAseq experiment
rnaseqpower
sspa
sample size
sequencing
complex-design
updated 8.1 years ago by
m.van_iterson
▴ 20 • written 8.1 years ago by
roser.navarro
• 0
2
votes
4
replies
6.8k
views
DESeq2 Error in estimateSizeFactorsForMatrix
Sequencing
Alignment
DESeq
DESeq2
Sequencing
Alignment
DESeq
DESeq2
updated 8.8 years ago by
gaelgarcia
• 0 • written 9.8 years ago by
Guest User
★ 13k
1
vote
2
replies
1.3k
views
Can I use rtracklayer to get the sequence surrounding a set of variants?
rtracklayer
sequencing
reference genome
8.6 years ago
Stephanie M. Gogarten
▴ 870
0
votes
4
replies
1.7k
views
segfault for pairwiseAlignment
sequencing
software error
alignment
updated 9.5 years ago by
Kasper Daniel Hansen
★ 6.5k • written 9.5 years ago by
Taub, Margaret
▴ 10
0
votes
13
replies
2.6k
views
multiple hits with countOverlaps function
Sequencing
GenomicFeatures
Sequencing
GenomicFeatures
13.0 years ago
Wei Shi
★ 3.6k
4
votes
2
replies
2.2k
views
Detect global differences in miRNA expression between tumor and normal using spike-ins
edger
limma
mirna
sequencing
updated 8.7 years ago by
Aaron Lun
★ 28k • written 8.7 years ago by
R
▴ 40
0
votes
3
replies
1.4k
views
edgeR: mixing technical replicates from Illumina HiSeq and MiSeq
Sequencing
Alignment
GO
edgeR
DESeq2
updated 9.6 years ago by
Ryan C. Thompson
★ 7.9k • written 9.6 years ago by
Nick N
▴ 60
0
votes
3
replies
929
views
How does shearwater determine the reference sequence?
sequencing
9.5 years ago
Asma rabe
▴ 290
0
votes
4
replies
1.5k
views
IONiseR readFast5Summary Error
R
sequencing
preprocessing
bioconductor
updated 8.3 years ago by
Mike Smith
★ 6.5k • written 8.3 years ago by
mariandhore
• 0
0
votes
8
replies
2.3k
views
DEXSeq - too many exons in gene
Sequencing
Annotation
DEXSeq
Sequencing
Annotation
DEXSeq
updated 10.1 years ago by
Steve Lianoglou
★ 13k • written 10.1 years ago by
António Miguel de Jesus Domingues
▴ 490
3
votes
8
replies
4.4k
views
DESeq / DESeq2 for translation efficiency in polysome profiling or ribsome profiling experiments
Sequencing
DESeq
Sequencing
DESeq
updated 7.6 years ago by
contactbiostructure
• 0 • written 10.3 years ago by
Guest User
★ 13k
0
votes
2
replies
6.3k
views
how to obtain base counts from BAM file at specific genomic coordinates
SNP
Sequencing
Coverage
Alignment
Cancer
Biostrings
PROcess
IRanges
GenomicRanges
SNP
updated 10.4 years ago by
Michael Lawrence
★ 11k • written 10.4 years ago by
Hervé Pagès
16k
0
votes
2
replies
1.7k
views
Bacterial genomics
Sequencing
Microarray
qPCR
genomes
Sequencing
Microarray
qPCR
genomes
updated 13.6 years ago by
Hervé Pagès
16k • written 13.6 years ago by
Mathieu Parent
▴ 30
0
votes
8
replies
1.6k
views
Designing a model with blocking and other interactions
Sequencing
Sequencing
updated 10.0 years ago by
Gordon Smyth
50k • written 10.0 years ago by
Eleanor Su
▴ 110
0
votes
9
replies
2.3k
views
SOLiD color space data
Sequencing
Sequencing
updated 13.3 years ago by
rcaloger
▴ 500 • written 13.3 years ago by
Neel Aluru
▴ 460
0
votes
4
replies
1.5k
views
Bioconductor 2.8 is released
SNP
Sequencing
miRNA
Microarray
Annotation
Normalization
Pathways
Preprocessing
Network
updated 13.0 years ago by
Ivan Gregoretti
▴ 310 • written 13.0 years ago by
Dan Tenenbaum
★ 8.2k
0
votes
4
replies
1.2k
views
finding a very large number of false positives using edgeR
Sequencing
RNASeq
edgeR
Sequencing
RNASeq
edgeR
updated 10.2 years ago by
Gordon Smyth
50k • written 10.2 years ago by
Blum, Charles
▴ 20
1
vote
2
replies
3.0k
views
Interaction categorical/continuous variable DESeq2
Sequencing
DESeq2
updated 9.5 years ago by
Wolfgang Huber
★ 13k • written 9.5 years ago by
Hugo Varet
▴ 80
2
votes
5
replies
1.5k
views
DEXSeq update results change
Sequencing
DESeq
DEXSeq
Sequencing
DESeq
DEXSeq
9.6 years ago
António Miguel de Jesus Domingues
▴ 490
3
votes
3
replies
2.8k
views
Clarrification of ReadDNAStringSet
sequencing
9.2 years ago
khouloud.madbouh
• 0
0
votes
2
replies
1.6k
views
preparing sequencing data for use with anota
Sequencing
Normalization
PROcess
anota
Sequencing
Normalization
PROcess
anota
updated 8.6 years ago by
kesarwani.anil
• 0 • written 10.0 years ago by
Guest User
★ 13k
0
votes
2
replies
962
views
DESeq - non-differential expression
Sequencing
miRNA
Genetics
DESeq
Sequencing
miRNA
Genetics
DESeq
updated 13.0 years ago by
Thomas J Hardcastle
▴ 180 • written 13.0 years ago by
Christophe Antoniewski
▴ 10
0
votes
3
replies
1.4k
views
homopolymer gap extension penalty in Biostrings
Sequencing
Alignment
GO
Cancer
Sequencing
Alignment
GO
Cancer
updated 12.1 years ago by
Noah Hoffman
▴ 10 • written 12.1 years ago by
Hervé Pagès
16k
0
votes
2
replies
3.8k
views
Bioconductor 2.12 is released
BiocViews
aCGH
SNP
Transcription
Sequencing
Microarray
Coverage
Alignment
Annotation
GO
updated 8.7 years ago by
marksteve952
• 0 • written 11.0 years ago by
Dan Tenenbaum
★ 8.2k
0
votes
2
replies
4.6k
views
gplots Heatmap
SNP
Transcription
Sequencing
RNASeq
miRNA
Microarray
Annotation
Normalization
GO
Cancer
updated 12.1 years ago by
Wolfgang Huber
★ 13k • written 12.1 years ago by
Polikepahad, Sumanth
▴ 10
0
votes
17
replies
2.6k
views
[Bioc] RNAseq less sensitive than microarrays? Is it a statistical issue?
Sequencing
RNASeq
Microarray
qPCR
Coverage
edgeR
DESeq
Sequencing
RNASeq
Microarray
qPCR
updated 10.9 years ago by
Steve Lianoglou
★ 13k • written 10.9 years ago by
Lucia Peixoto
▴ 330
0
votes
2
replies
882
views
present/absent on 2-color oligo arrays
Sequencing
Microarray
Sequencing
Microarray
updated 15.2 years ago by
Kasper Daniel Hansen
★ 6.5k • written 15.2 years ago by
Naomi Altman
★ 6.0k
0
votes
2
replies
1.5k
views
How to design matrix on edgeR to study genotype x environmental interaction
Sequencing
miRNA
Normalization
edgeR
Sequencing
miRNA
Normalization
edgeR
11.4 years ago • updated 11.3 years ago
Gordon Smyth
50k
0
votes
4
replies
8.0k
views
DESeq adjusted pvalue calculation / filtering data
Sequencing
Organism
qvalue
DESeq
Sequencing
Organism
qvalue
DESeq
updated 12.3 years ago by
Naomi Altman
★ 6.0k • written 12.3 years ago by
Markus Grohme
▴ 20
0
votes
4
replies
1.4k
views
ShortRead for sequencing data quality assessment
Sequencing
ShortRead
Sequencing
ShortRead
13.5 years ago
heyi xiao
▴ 360
0
votes
7
replies
2.2k
views
Bioconductor 2.6 is released
Sequencing
Microarray
Visualization
Infrastructure
PROcess
beadarray
keggorthology
eisa
updated 7.6 years ago by
wangyizhusss
• 0 • written 13.9 years ago by
Patrick Aboyoun
★ 1.6k
0
votes
3
replies
1.2k
views
Phylogenetic inference
Sequencing
Sequencing
updated 21.2 years ago by
Anthony Rossini
▴ 530 • written 21.2 years ago by
kjetil brinchmann halvorsen
▴ 10
0
votes
4
replies
1.2k
views
Query
Sequencing
Sequencing
updated 14.1 years ago by
Martin Morgan
25k • written 14.1 years ago by
Yogesh Kumar
▴ 10
0
votes
3
replies
1.8k
views
[Bioc-sig-seq] Bioconductor 2.8 is released
SNP
Sequencing
miRNA
Microarray
Annotation
Normalization
Pathways
Preprocessing
Survival
updated 13.0 years ago by
Ivan Gregoretti
▴ 310 • written 13.0 years ago by
Dan Tenenbaum
★ 8.2k
0
votes
6
replies
6.9k
views
DeSeq vs current version of Cuffdiff
Sequencing
Bayesian
Cancer
DESeq
Sequencing
Bayesian
Cancer
DESeq
updated 12.1 years ago by
Stephen Turner
▴ 290 • written 12.1 years ago by
Richard Friedman
★ 2.0k
0
votes
7
replies
2.7k
views
[ReportingTools] and DESeq2 results, publish DESeqDataSet using resultsNames other than the default
Sequencing
ReportingTools
DESeq2
Sequencing
ReportingTools
DESeq2
updated 10.2 years ago by
James W. MacDonald
65k • written 10.2 years ago by
Dimitra Alexopoulou
▴ 30
0
votes
2
replies
892
views
next-generation sequencing and embryogenisis
Sequencing
SAGE
Coverage
Sequencing
SAGE
Coverage
updated 13.7 years ago by
Steve Shen
▴ 330 • written 13.7 years ago by
Ziping Zhang
▴ 20
0
votes
3
replies
1.3k
views
ShortRead QA
Sequencing
ShortRead
Sequencing
ShortRead
updated 13.7 years ago by
Martin Morgan
25k • written 13.7 years ago by
Alex Gutteridge
▴ 650
0
votes
3
replies
1.0k
views
help - where to start
Sequencing
Sequencing
updated 13.5 years ago by
Martin Morgan
25k • written 13.5 years ago by
Adrian Johnson
▴ 330
0
votes
4
replies
1.4k
views
faster way to get differential calls from pileup?
SNP
Sequencing
PROcess
SNP
Sequencing
PROcess
updated 13.5 years ago by
Sean Davis
21k • written 13.5 years ago by
wrighth
▴ 260
0
votes
2
replies
1.4k
views
New gage package: Generally Applicable Gene-set/Pathway Analysis
Sequencing
Microarray
Pathways
GO
Yeast
gage
Sequencing
Microarray
Pathways
GO
Yeast
13.4 years ago
Luo Weijun
★ 1.6k
0
votes
3
replies
1.7k
views
edgeR: mixing technical replicates from Illumina HiSeq and MiSeq
Sequencing
Sequencing
updated 9.6 years ago by
Ryan C. Thompson
★ 7.9k • written 9.6 years ago by
Nick N
▴ 60
50 results • Page
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Comment: miRTarRnaseq library
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Yes that is correct
Answer: Merging featureCounts output for different species
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41k
Bioconductor support site is for posting questions about software. Try biostars.
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It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
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65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
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