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Showing :
sequencing
•
reset
2
votes
5
replies
347
views
Merge GRanges, ignore strand
Sequencing
SummarizedExperiment
GRanges
5 months ago
Marcus
• 0
0
votes
1
reply
922
views
dispersion in edgeR
Sequencing
edgeR
Sequencing
edgeR
updated 8 months ago by
Gordon Smyth
47k • written 12.6 years ago by
Naomi Altman
★ 6.0k
0
votes
0
replies
354
views
Job:
Tenure-track Group Leader Positions in Computational Biology and Biological Chemistry
bioinformatics
genomics
proteomics
biologicalchemistry
sequencing
12 months ago
Robert Castelo
★ 3.0k
6
votes
6
replies
640
views
Batch effect from to sequencing data at differents depths
Sequencing
sequencingDeepth
BatchEffect
DESeq2
15 months ago
ary.lech
▴ 10
0
votes
0
replies
427
views
Job:
Bioinformatician position at University of Texas Southwestern Medical Center
Sequencing
bioinformatics
15 months ago
chao.xing
• 0
1
vote
3
replies
526
views
Preferential sequencing of longer Genes in Illumina?
DESeq2
sequencing
updated 22 months ago by
victorbradford4
• 0 • written 22 months ago by
simplyphage
• 0
2
votes
2
replies
474
views
is the P value reliable if the counts are Low across the sample ?
DESeq2
sequencing
22 months ago
simplyphage
• 0
0
votes
0
replies
548
views
Job:
Tenure-track Group Leader Position in Computational Biology
bioinformatics
sequencing
barcelona
proteomics
24 months ago
Robert Castelo
★ 3.0k
0
votes
0
replies
613
views
Job:
Post-doc position in multi-omics of Alzheimer's disease at Columbia University in New York City
JobPosting
postdoc
sequencing
multiomics
2.0 years ago • updated 23 months ago
lhd
• 0
0
votes
0
replies
504
views
Job:
Scientist/Senior Scientist, Statistical Geneticist
Sequencing
Genetics
GeneticsPed
statistics
2.1 years ago
António Miguel de Jesus Domingues
▴ 490
0
votes
0
replies
487
views
Job:
Postdoc: BIOINFORMATICS FOR FUNCTIONAL GENOMICS AND POPULATION GENETICS OF CANCER
GWAS
lung cancer
functional genomics
eQTL
sequencing
Job
2.8 years ago
jiyeon.choi2
• 0
0
votes
0
replies
490
views
Job:
Post-doc fellow - Aparicio Lab
single cell
bioinformatics
genome
sequencing
Job
3.4 years ago
jmaanaki
• 0
0
votes
2
replies
744
views
DESeq2 error on analyzing microbiome data
deseq2
microbiome
sequencing
3.6 years ago
zhigang.li
• 0
2
votes
3
replies
933
views
Boxplot function not showing all reads length on x-axis
boxplot
reads
fastq
sequencing
rsubread
updated 3.7 years ago by
Wei Shi
★ 3.5k • written 3.7 years ago by
Raito92
▴ 60
0
votes
1
reply
517
views
Annotating protein sequences
Protein
iranges
sequencing
3.9 years ago
ieuangw
• 0
0
votes
0
replies
2.0k
views
Job:
Postdoc in Population Genomics - UC Davis
bioinformatics
evolution
sequencing
genome analysis
genomics
Job
4.3 years ago
hschmidt
• 0
0
votes
0
replies
649
views
Job:
Research Associate- Production Bioinformatics - Atlantic Cancer Research Institute - Moncton -New Brunwsiwck - Canada
cancer
bioinformatics
bioinformatician job
sequencing
Job
4.5 years ago
gabriel.wajnberg
• 0
1
vote
10
replies
1.5k
views
Ribo-seq/RNA-seq analysis -- DESeq2 multi-factor design
deseq2
sequencing
ribosome profiling
riboseq
multiple factor design
updated 4.5 years ago by
Michael Love
39k • written 4.5 years ago by
kotcha.m
▴ 10
0
votes
0
replies
730
views
Job:
Post-doc in Prostate Cancer Research (Statistics / Computational Biology) at University of St Andrews (+PhD position also available)
cancer
sequencing
rnaseq
methylation
smallrna
Job
4.6 years ago
Andy Lynch
▴ 120
0
votes
0
replies
485
views
Number of reads needed for Guide-Seq
sequencing
4.8 years ago
Jacques-P.Tremblay
• 0
1
vote
1
reply
1.7k
views
Rsamtools : separating mapped and unmapped reads from BAM or SAM files (for a newbie)
R
sequencing
alignment
rsamtools
mapping
updated 4.8 years ago by
James W. MacDonald
62k • written 4.8 years ago by
nginet
▴ 10
0
votes
0
replies
583
views
Sequence composition effect
sequencing
rnaseq_analysis
5.1 years ago
alemutak
• 0
0
votes
1
reply
963
views
write ab1 files
sangerseqr
sequencing
abi
5.4 years ago
tmolosh
• 0
2
votes
11
replies
1.3k
views
DESeq2 polysome profiling analysis with 2 interaction terms
deseq2
sequencing
polysome profiling
updated 5.7 years ago by
Michael Love
39k • written 5.7 years ago by
erica
▴ 10
0
votes
0
replies
1.3k
views
Job:
Postdoc / Computational Biologist for circulating tumor DNA/RNA profiling at Memorial Sloan Kettering Cancer Center MSKCC, New York
cancer
sequencing
genetics
genomes
diagnostic
Job
6.4 years ago
dtlabmskcc
• 0
3
votes
8
replies
3.6k
views
DESeq / DESeq2 for translation efficiency in polysome profiling or ribsome profiling experiments
Sequencing
DESeq
Sequencing
DESeq
updated 6.5 years ago by
contactbiostructure
• 0 • written 9.1 years ago by
Guest User
★ 12k
0
votes
7
replies
1.6k
views
Bioconductor 2.6 is released
Sequencing
Microarray
Visualization
Infrastructure
PROcess
beadarray
keggorthology
eisa
updated 6.5 years ago by
wangyizhusss
• 0 • written 12.8 years ago by
Patrick Aboyoun
1.6k
8
votes
2
replies
2.6k
views
Appropriate ways to filter counts data for voom/limma
limma
edger
sequencing
updated 6.5 years ago by
Gordon Smyth
47k • written 6.5 years ago by
blofeld
▴ 10
6
votes
4
replies
984
views
How to normalize chemical genomics barcode sequencing data
limma
normalization
sequencing
edger
updated 6.7 years ago by
Aaron Lun
★ 28k • written 6.7 years ago by
Yury Bukhman
▴ 20
0
votes
4
replies
2.0k
views
DNAString: Standard checksum function?
Biostrings
FASTA
sequencing
6.9 years ago
Henrik Bengtsson
★ 2.4k
2
votes
4
replies
1.1k
views
Complex ANOVA analysis in EdgeR
edger
anova
sequencing
updated 7.0 years ago by
Aaron Lun
★ 28k • written 7.0 years ago by
kmyers2
• 0
0
votes
5
replies
1.5k
views
getting sample size for RNAseq experiment
rnaseqpower
sspa
sample size
sequencing
complex-design
updated 7.0 years ago by
m.van_iterson
▴ 20 • written 7.0 years ago by
roser.navarro
• 0
0
votes
4
replies
1.2k
views
IONiseR readFast5Summary Error
R
sequencing
preprocessing
bioconductor
updated 7.2 years ago by
Mike Smith
★ 5.9k • written 7.2 years ago by
mariandhore
• 0
1
vote
0
replies
1.4k
views
Job:
Post-doc Position in Epigenetic Bioinformatics
cancer
sequencing
epigenetics
computational biology
bioinformatics
Job
7.2 years ago
Yassen Assenov
▴ 10
1
vote
1
reply
2.0k
views
Trim DNAStringSets using ShortRead while keeping the primer sequences?
sequencing
biostrings
shortread
updated 7.2 years ago by
Martin Morgan
25k • written 7.2 years ago by
steven.everman
▴ 10
1
vote
2
replies
1.6k
views
DNAcopy: Using log-ratios and B-allele frequencies
sequencing
snp
updated 7.4 years ago by
Jan Oosting
▴ 20 • written 7.4 years ago by
markus.riester
• 0
1
vote
2
replies
946
views
Can I use rtracklayer to get the sequence surrounding a set of variants?
rtracklayer
sequencing
reference genome
7.4 years ago
Stephanie M. Gogarten
▴ 840
1
vote
1
reply
1.9k
views
Perplexing results with Limma with RNA-seq data
sequencing
microarray
updated 7.5 years ago by
Steve Lianoglou
13k • written 7.5 years ago by
chris86
▴ 400
3
votes
0
replies
1.3k
views
News:
BioCAsia, 8 Sept 2015, Tokyo
sequencing
transcription
epigenomics
visualization
infrastructure
News
7.6 years ago • updated 7.5 years ago
Matthew Ritchie
▴ 1000
0
votes
2
replies
1.3k
views
preparing sequencing data for use with anota
Sequencing
Normalization
PROcess
anota
Sequencing
Normalization
PROcess
anota
updated 7.5 years ago by
kesarwani.anil
• 0 • written 8.9 years ago by
Guest User
★ 12k
3
votes
1
reply
1.9k
views
Adjusting for gender using limma
limma
microarray
sequencing
updated 7.5 years ago by
James W. MacDonald
62k • written 7.5 years ago by
chris86
▴ 400
0
votes
1
reply
1.2k
views
Getting data on the out-of-frame transcripts
annotate
sequencing
genomicfeatures
updated 7.5 years ago by
Hervé Pagès
16k • written 7.5 years ago by
janson.white
• 0
3
votes
4
replies
2.7k
views
Variance filtering prior to RNA-seq differential expression
sequencing
deseq
limma
updated 7.6 years ago by
Gordon Smyth
47k • written 7.6 years ago by
chris86
▴ 400
0
votes
2
replies
3.3k
views
Bioconductor 2.12 is released
BiocViews
aCGH
SNP
Transcription
Sequencing
Microarray
Coverage
Alignment
Annotation
GO
updated 7.6 years ago by
marksteve952
• 0 • written 9.9 years ago by
Dan Tenenbaum
★ 8.2k
4
votes
2
replies
1.8k
views
Detect global differences in miRNA expression between tumor and normal using spike-ins
edger
limma
mirna
sequencing
updated 7.6 years ago by
Aaron Lun
★ 28k • written 7.6 years ago by
R
▴ 40
2
votes
3
replies
1.3k
views
SVA batch effects for different technologies
normalization
deseq2
sequencing
sva
7.6 years ago
marcin.bazyliszek
• 0
4
votes
0
replies
1.2k
views
News:
Hands-on Bioconductor course, 7 Sept 2015, Tokyo
sequencing
transcription
variantfiltering
annotation
News
7.6 years ago
Matthew Ritchie
▴ 1000
2
votes
4
replies
5.7k
views
DESeq2 Error in estimateSizeFactorsForMatrix
Sequencing
Alignment
DESeq
DESeq2
Sequencing
Alignment
DESeq
DESeq2
updated 7.7 years ago by
gaelgarcia
• 0 • written 8.7 years ago by
Guest User
★ 12k
0
votes
0
replies
1.4k
views
Job:
Bioinformatics Scientist, Astex Pharmaceuticals
bioinformatician job
oncology
sequencing
drug development
Job
7.7 years ago
Harpreet Saini
▴ 30
1
vote
0
replies
1.0k
views
Genome editing analysis with Illumina sequencing
indel
sequencing
alignment
7.8 years ago
Merienne Nicolas
▴ 120
50 results • Page
1 of 1
Recent ...
Replies
Comment: DESeq2 and heatmap for multiple comparisons
by
artem.vorobyev
• 0
this I already did. My question is how to visualize differentially expressed genes on the heatmap for all 3 groups (healty->lesion->treat…
Comment: athPkgBuilder data source :missing probesets
by
nicklesteele532
• 0
> >>> > >>> How to handle the one probeset to multiple locus mappings? I can > >think 3 > >>> possible solutions: > >>> 1. pick the "best" …
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
> sum(width(gr_toexclude)) [1] 2713499861 I excluded everything which was not locus. If small rna locus is from 2000 to 4000 and next locu…
Comment: Why in Bioconductor community people rarely upvote questions?
by
Hervé Pagès
16k
BTW I fail to see how the lack of upvotes to a question would be discouraging as long as you get a good answer. OTOH I can see how failing …
Answer: DESeq2 and heatmap for multiple comparisons
by
swbarnes2
★ 1.2k
If you want to know what genes are different between lesion and treated, compare them to each other.
Votes
Comment: recount 3 protect read length metadata
Answer: Doubts about manipulation and annotation of microarray files deposited at GEO
C: Batch correction in DESeq2
Comment: Strand information in a GAlignmentsList object derived from strand-specific pair
Comment: Strand information in a GAlignmentsList object derived from strand-specific pair
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★ 1.6k
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