Showing : sequencing • reset
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73
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News: Course Manipulation of NGS Data for Genomic and Population Genetics Analyses
sequencing Sequencing SequencingData
7 days ago communication • 0
0
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0
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318
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is Dada2 biased toward a particular sequence ?
virology dada2 amplican Sequencing RNASeq
6 months ago Sara • 0
2
votes
5
replies
1.4k
views
Merge GRanges, ignore strand
Sequencing SummarizedExperiment GRanges
19 months ago Marcus • 0
0
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0
replies
745
views
Job: Tenure-track Group Leader Positions in Computational Biology and Biological Chemistry
bioinformatics genomics proteomics biologicalchemistry sequencing
2.2 years ago Robert Castelo ★ 3.2k
6
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6
replies
1.4k
views
Batch effect from to sequencing data at differents depths
Sequencing sequencingDeepth BatchEffect DESeq2
2.5 years ago ary.lech ▴ 10
0
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0
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995
views
Job: Bioinformatician position at University of Texas Southwestern Medical Center
Sequencing bioinformatics
2.5 years ago chao.xing • 0
1
vote
3
replies
868
views
Preferential sequencing of longer Genes in Illumina?
DESeq2 sequencing
updated 3.1 years ago by • 0 • written 3.1 years ago by • 0
2
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2
replies
818
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is the P value reliable if the counts are Low across the sample ?
DESeq2 sequencing
3.1 years ago simplyphage • 0
0
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0
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941
views
Job: Tenure-track Group Leader Position in Computational Biology
bioinformatics sequencing barcelona proteomics
3.2 years ago Robert Castelo ★ 3.2k
0
votes
0
replies
1.1k
views
Job: Post-doc position in multi-omics of Alzheimer's disease at Columbia University in New York City
JobPosting postdoc sequencing multiomics
3.2 years ago lhd • 0
0
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0
replies
875
views
Job: Scientist/Senior Scientist, Statistical Geneticist
Sequencing Genetics GeneticsPed statistics
3.3 years ago António Miguel de Jesus Domingues ▴ 490
0
votes
0
replies
888
views
Job: Postdoc: BIOINFORMATICS FOR FUNCTIONAL GENOMICS AND POPULATION GENETICS OF CANCER
GWAS lung cancer functional genomics eQTL sequencing Job
4.0 years ago jiyeon.choi2 • 0
0
votes
0
replies
901
views
Job: Post-doc fellow - Aparicio Lab
single cell bioinformatics genome sequencing Job
4.6 years ago jmaanaki • 0
0
votes
2
replies
1.3k
views
DESeq2 error on analyzing microbiome data
deseq2 microbiome sequencing
4.8 years ago zhigang.li • 0
2
votes
3
replies
1.4k
views
Boxplot function not showing all reads length on x-axis
boxplot reads fastq sequencing rsubread
updated 4.9 years ago by ★ 3.6k • written 4.9 years ago by ▴ 60
0
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1
reply
813
views
Annotating protein sequences
Protein iranges sequencing
5.1 years ago ieuangw • 0
0
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0
replies
2.6k
views
Job: Postdoc in Population Genomics - UC Davis
bioinformatics evolution sequencing genome analysis genomics Job
5.5 years ago hschmidt • 0
0
votes
0
replies
979
views
Job: Research Associate- Production Bioinformatics - Atlantic Cancer Research Institute - Moncton -New Brunwsiwck - Canada
cancer bioinformatics bioinformatician job sequencing Job
5.7 years ago gabriel.wajnberg • 0
1
vote
10
replies
2.1k
views
Ribo-seq/RNA-seq analysis -- DESeq2 multi-factor design
deseq2 sequencing ribosome profiling riboseq multiple factor design
updated 5.7 years ago by 41k • written 5.7 years ago by ▴ 10
0
votes
0
replies
1.1k
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
5.8 years ago Andy Lynch ▴ 120
0
votes
0
replies
822
views
Number of reads needed for Guide-Seq
sequencing
6.0 years ago Jacques-P.Tremblay • 0
1
vote
1
reply
2.7k
views
Rsamtools : separating mapped and unmapped reads from BAM or SAM files (for a newbie)
R sequencing alignment rsamtools mapping
updated 6.0 years ago by 65k • written 6.0 years ago by ▴ 10
0
votes
0
replies
907
views
Sequence composition effect
sequencing rnaseq_analysis
6.2 years ago alemutak • 0
0
votes
1
reply
1.8k
views
write ab1 files
sangerseqr sequencing abi
6.6 years ago tmolosh • 0
2
votes
11
replies
1.9k
views
DESeq2 polysome profiling analysis with 2 interaction terms
deseq2 sequencing polysome profiling
updated 6.9 years ago by 41k • written 6.9 years ago by ▴ 10
0
votes
0
replies
1.7k
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
7.6 years ago dtlabmskcc • 0
8
votes
2
replies
3.5k
views
Appropriate ways to filter counts data for voom/limma
limma edger sequencing
updated 7.7 years ago by 50k • written 7.7 years ago by ▴ 10
6
votes
4
replies
1.5k
views
How to normalize chemical genomics barcode sequencing data
limma normalization sequencing edger
updated 7.8 years ago by ★ 28k • written 7.8 years ago by ▴ 20
0
votes
4
replies
2.8k
views
DNAString: Standard checksum function?
Biostrings FASTA sequencing
8.1 years ago Henrik Bengtsson ★ 2.4k
2
votes
4
replies
1.4k
views
Complex ANOVA analysis in EdgeR
edger anova sequencing
updated 8.2 years ago by ★ 28k • written 8.2 years ago by • 0
0
votes
5
replies
2.2k
views
getting sample size for RNAseq experiment
rnaseqpower sspa sample size sequencing complex-design
updated 8.2 years ago by ▴ 20 • written 8.2 years ago by • 0
0
votes
4
replies
1.6k
views
IONiseR readFast5Summary Error
R sequencing preprocessing bioconductor
updated 8.3 years ago by ★ 6.5k • written 8.4 years ago by • 0
1
vote
0
replies
1.7k
views
Job: Post-doc Position in Epigenetic Bioinformatics
cancer sequencing epigenetics computational biology bioinformatics Job
8.4 years ago Yassen Assenov ▴ 10
1
vote
1
reply
2.4k
views
Trim DNAStringSets using ShortRead while keeping the primer sequences?
sequencing biostrings shortread
updated 8.4 years ago by 25k • written 8.4 years ago by ▴ 10
1
vote
2
replies
2.1k
views
DNAcopy: Using log-ratios and B-allele frequencies
sequencing snp
updated 8.6 years ago by ▴ 20 • written 8.6 years ago by • 0
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
1
vote
1
reply
2.2k
views
Perplexing results with Limma with RNA-seq data
sequencing microarray
updated 8.7 years ago by ★ 13k • written 8.7 years ago by ▴ 420
3
votes
1
reply
2.3k
views
Adjusting for gender using limma
limma microarray sequencing
updated 8.7 years ago by 65k • written 8.7 years ago by ▴ 420
0
votes
1
reply
1.5k
views
Getting data on the out-of-frame transcripts
annotate sequencing genomicfeatures
updated 8.7 years ago by 16k • written 8.7 years ago by • 0
3
votes
4
replies
3.4k
views
Variance filtering prior to RNA-seq differential expression
sequencing deseq limma
updated 8.8 years ago by 50k • written 8.8 years ago by ▴ 420
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 8.8 years ago by ★ 28k • written 8.8 years ago by ▴ 40
2
votes
3
replies
1.7k
views
SVA batch effects for different technologies
normalization deseq2 sequencing sva
8.8 years ago marcin.bazyliszek • 0
4
votes
0
replies
1.5k
views
News: Hands-on Bioconductor course, 7 Sept 2015, Tokyo
sequencing transcription variantfiltering annotation News
8.8 years ago Matthew Ritchie ▴ 1000
3
votes
0
replies
1.7k
views
News: BioCAsia, 8 Sept 2015, Tokyo
sequencing transcription epigenomics visualization infrastructure News
8.8 years ago • updated 8.7 years ago Matthew Ritchie ▴ 1000
0
votes
0
replies
1.7k
views
Job: Bioinformatics Scientist, Astex Pharmaceuticals
bioinformatician job oncology sequencing drug development Job
8.9 years ago Harpreet Saini ▴ 30
1
vote
0
replies
1.3k
views
Genome editing analysis with Illumina sequencing
indel sequencing alignment
9.0 years ago Merienne Nicolas ▴ 120
0
votes
0
replies
990
views
Invitation Research Collaborations
cancer microarray mirna sequencing
9.0 years ago alexandru.floares • 0
0
votes
0
replies
1.6k
views
Job: Research Associate, Cambridge, UK - Oesophageal Cancer ICGC project
job sequencing methylation expression Job
9.2 years ago Andy Lynch ▴ 120
3
votes
3
replies
2.9k
views
Clarrification of ReadDNAStringSet
sequencing
9.2 years ago khouloud.madbouh • 0
0
votes
0
replies
1.3k
views
Job: Computational Biologist Research Associate Position at the University of Cambridge
cancer sequencing prostate Job
9.5 years ago Andy Lynch ▴ 120
50 results • Page 1 of 1
Recent ...
Replies
Comment: Finding DEGs by using edgeR by Gordon Smyth 50k
Filtering (removing lowly expressed genes) has nothing to do with normalization. It isn't clear why not subsetting would cause any difficu…
Comment: How to make DGEList and design matrix by edgeR package by prity6459 • 0
Thank you for your suggestion. Yes, I have made DGEList and design matrix in my script. But I was not entirely confident while making thos…
Comment: Finding DEGs by using edgeR by prity6459 • 0
Hello Gordon, Thanks for your response. By normalization, I meant that I have already removed lowly expressed genes from my count matrix. …
Answer: FilterByExpr low counts with small sample size by Gordon Smyth 50k
It doesn't seem to me that there is necessarily any problem with the analysis. You say that there are "too many low-reads" but actually th…
Answer: How to make DGEList and design matrix by edgeR package by Gordon Smyth 50k
Your question is curious because you showed code that made a DGEList and design matrix in your previous post just 15 hours ago. Please h…
Votes
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
Comment: DEXSeq DEXSeqDataSet count matrix duplication
Comment: Error in champ.load(): The following specified files do not exist
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