Showing : sequencing • reset
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News: Course Manipulation of NGS Data for Genomic and Population Genetics Analyses
sequencing Sequencing SequencingData
7 months ago communication • 0
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517
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is Dada2 biased toward a particular sequence ?
virology dada2 amplican Sequencing RNASeq
13 months ago Sara • 0
2
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5
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1.9k
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Merge GRanges, ignore strand
Sequencing SummarizedExperiment GRanges
2.2 years ago Marcus • 0
0
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1
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1.5k
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dispersion in edgeR
Sequencing edgeR Sequencing edgeR
updated 2.4 years ago by 51k • written 14.4 years ago by ★ 6.0k
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927
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Job: Tenure-track Group Leader Positions in Computational Biology and Biological Chemistry
bioinformatics genomics proteomics biologicalchemistry sequencing
2.8 years ago Robert Castelo ★ 3.4k
6
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6
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1.9k
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Batch effect from to sequencing data at differents depths
Sequencing sequencingDeepth BatchEffect DESeq2
3.1 years ago ary.lech ▴ 10
0
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0
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1.2k
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Job: Bioinformatician position at University of Texas Southwestern Medical Center
Sequencing bioinformatics
3.1 years ago chao.xing • 0
1
vote
3
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1.0k
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Preferential sequencing of longer Genes in Illumina?
DESeq2 sequencing
updated 3.6 years ago by • 0 • written 3.6 years ago by • 0
2
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2
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991
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is the P value reliable if the counts are Low across the sample ?
DESeq2 sequencing
3.7 years ago • updated 3.6 years ago simplyphage • 0
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1.1k
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Job: Tenure-track Group Leader Position in Computational Biology
bioinformatics sequencing barcelona proteomics
3.8 years ago Robert Castelo ★ 3.4k
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0
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1.4k
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Job: Post-doc position in multi-omics of Alzheimer's disease at Columbia University in New York City
JobPosting postdoc sequencing multiomics
3.8 years ago • updated 3.7 years ago lhd • 0
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0
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1.1k
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Job: Scientist/Senior Scientist, Statistical Geneticist
Sequencing Genetics GeneticsPed statistics
3.9 years ago António Miguel de Jesus Domingues ▴ 510
0
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0
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1.1k
views
Job: Postdoc: BIOINFORMATICS FOR FUNCTIONAL GENOMICS AND POPULATION GENETICS OF CANCER
GWAS lung cancer functional genomics eQTL sequencing Job
4.6 years ago jiyeon.choi2 • 0
0
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0
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1.1k
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Job: Post-doc fellow - Aparicio Lab
single cell bioinformatics genome sequencing Job
5.2 years ago jmaanaki • 0
0
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2
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1.5k
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DESeq2 error on analyzing microbiome data
deseq2 microbiome sequencing
5.4 years ago zhigang.li • 0
2
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3
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1.7k
views
Boxplot function not showing all reads length on x-axis
boxplot reads fastq sequencing rsubread
updated 5.5 years ago by ★ 3.6k • written 5.5 years ago by ▴ 60
0
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1
reply
970
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Annotating protein sequences
Protein iranges sequencing
5.7 years ago ieuangw • 0
0
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0
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3.0k
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Job: Postdoc in Population Genomics - UC Davis
bioinformatics evolution sequencing genome analysis genomics Job
6.1 years ago hschmidt • 0
0
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0
replies
1.2k
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Job: Research Associate- Production Bioinformatics - Atlantic Cancer Research Institute - Moncton -New Brunwsiwck - Canada
cancer bioinformatics bioinformatician job sequencing Job
6.2 years ago gabriel.wajnberg • 0
1
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10
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2.4k
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Ribo-seq/RNA-seq analysis -- DESeq2 multi-factor design
deseq2 sequencing ribosome profiling riboseq multiple factor design
updated 6.3 years ago by 42k • written 6.3 years ago by ▴ 10
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0
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1.3k
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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
6.4 years ago Andy Lynch ▴ 120
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0
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961
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Number of reads needed for Guide-Seq
sequencing
6.6 years ago Jacques-P.Tremblay • 0
1
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1
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3.4k
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Rsamtools : separating mapped and unmapped reads from BAM or SAM files (for a newbie)
R sequencing alignment rsamtools mapping
updated 6.6 years ago by 67k • written 6.6 years ago by ▴ 10
0
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0
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1.0k
views
Sequence composition effect
sequencing rnaseq_analysis
6.8 years ago alemutak • 0
0
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1
reply
2.2k
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write ab1 files
sangerseqr sequencing abi
7.2 years ago tmolosh • 0
2
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11
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2.2k
views
DESeq2 polysome profiling analysis with 2 interaction terms
deseq2 sequencing polysome profiling
updated 7.5 years ago by 42k • written 7.5 years ago by ▴ 10
0
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0
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1.9k
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
8.2 years ago dtlabmskcc • 0
3
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8
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4.8k
views
DESeq / DESeq2 for translation efficiency in polysome profiling or ribsome profiling experiments
Sequencing DESeq Sequencing DESeq
updated 8.2 years ago by • 0 • written 10.9 years ago by ★ 13k
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7
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2.5k
views
Bioconductor 2.6 is released
Sequencing Microarray Visualization Infrastructure PROcess beadarray keggorthology eisa
updated 8.2 years ago by • 0 • written 14.6 years ago by ★ 1.6k
8
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3
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4.1k
views
Appropriate ways to filter counts data for voom/limma
limma edger sequencing
written 8.3 years ago by ▴ 10
6
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4
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1.7k
views
How to normalize chemical genomics barcode sequencing data
limma normalization sequencing edger
updated 8.4 years ago by ★ 28k • written 8.4 years ago by ▴ 20
0
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5
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3.2k
views
DNAString: Standard checksum function?
Biostrings FASTA sequencing
8.7 years ago • updated 6 months ago Henrik Bengtsson ★ 2.4k
2
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4
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1.6k
views
Complex ANOVA analysis in EdgeR
edger anova sequencing
updated 8.7 years ago by ★ 28k • written 8.7 years ago by • 0
0
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5
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2.5k
views
getting sample size for RNAseq experiment
rnaseqpower sspa sample size sequencing complex-design
updated 8.7 years ago by ▴ 20 • written 8.8 years ago by • 0
0
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4
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1.7k
views
IONiseR readFast5Summary Error
R sequencing preprocessing bioconductor
updated 8.9 years ago by ★ 6.6k • written 9.0 years ago by • 0
1
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0
replies
1.9k
views
Job: Post-doc Position in Epigenetic Bioinformatics
cancer sequencing epigenetics computational biology bioinformatics Job
9.0 years ago Yassen Assenov ▴ 10
1
vote
1
reply
2.6k
views
Trim DNAStringSets using ShortRead while keeping the primer sequences?
sequencing biostrings shortread
updated 9.0 years ago by 25k • written 9.0 years ago by ▴ 10
1
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2
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2.4k
views
DNAcopy: Using log-ratios and B-allele frequencies
sequencing snp
updated 9.1 years ago by ▴ 20 • written 9.1 years ago by • 0
1
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2
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1.5k
views
Can I use rtracklayer to get the sequence surrounding a set of variants?
rtracklayer sequencing reference genome
9.2 years ago Stephanie M. Gogarten ▴ 870
1
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1
reply
2.3k
views
Perplexing results with Limma with RNA-seq data
sequencing microarray
updated 9.3 years ago by ★ 13k • written 9.3 years ago by ▴ 420
3
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0
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1.9k
views
News: BioCAsia, 8 Sept 2015, Tokyo
sequencing transcription epigenomics visualization infrastructure News
9.4 years ago • updated 9.3 years ago Matthew Ritchie ▴ 1000
0
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2
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1.9k
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preparing sequencing data for use with anota
Sequencing Normalization PROcess anota Sequencing Normalization PROcess anota
updated 9.3 years ago by • 0 • written 10.7 years ago by ★ 13k
3
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1
reply
2.4k
views
Adjusting for gender using limma
limma microarray sequencing
updated 9.3 years ago by 67k • written 9.3 years ago by ▴ 420
0
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1
reply
1.6k
views
Getting data on the out-of-frame transcripts
annotate sequencing genomicfeatures
updated 9.3 years ago by 16k • written 9.3 years ago by • 0
3
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4
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3.8k
views
Variance filtering prior to RNA-seq differential expression
sequencing deseq limma
updated 9.3 years ago by 51k • written 9.3 years ago by ▴ 420
0
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2
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4.0k
views
Bioconductor 2.12 is released
BiocViews aCGH SNP Transcription Sequencing Microarray Coverage Alignment Annotation GO
updated 9.4 years ago by • 0 • written 11.6 years ago by ★ 8.2k
4
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2
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2.5k
views
Detect global differences in miRNA expression between tumor and normal using spike-ins
edger limma mirna sequencing
updated 9.4 years ago by ★ 28k • written 9.4 years ago by ▴ 40
2
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3
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1.9k
views
SVA batch effects for different technologies
normalization deseq2 sequencing sva
9.4 years ago marcin.bazyliszek • 0
4
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0
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1.6k
views
News: Hands-on Bioconductor course, 7 Sept 2015, Tokyo
sequencing transcription variantfiltering annotation News
9.4 years ago Matthew Ritchie ▴ 1000
2
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4
replies
7.4k
views
DESeq2 Error in estimateSizeFactorsForMatrix
Sequencing Alignment DESeq DESeq2 Sequencing Alignment DESeq DESeq2
updated 9.5 years ago by • 0 • written 10.5 years ago by ★ 13k
50 results • Page 1 of 1
Recent ...
Replies
Comment: limma technical repeat correction by Gordon Smyth 51k
I have never analysed SomaScan data, so I cannot make any specific recommendations about how to analyse such data. I have however analysed …
Answer: Using voom-transformed counts for unsupervised analyses (PCA, Random Forest, Ela by Gordon Smyth 51k
voom() does not transform the data to be homoscedastic. Quite the opposite, it computes precision weights that reflect the mean-variance tr…
Answer: Package needs internet access by James W. MacDonald 67k
It's going to need internet access. When you switch to NCBI seqlevels, you are calling this function ``` .fetch_chrom_sizes_from_UCSC_d…
Answer: List of DEGs belonging to an Agilent-single color microarray experiment using Li by Gordon Smyth 51k
The first coefficient in your linear model appears to be an intercept term. In this context, you should not be using `method="global"` beca…
Comment: Package needs internet access by firestar ▴ 20
Updated with more code.
Votes
Answer: Using voom-transformed counts for unsupervised analyses (PCA, Random Forest, Ela
Answer: Using voom-transformed counts for unsupervised analyses (PCA, Random Forest, Ela
Comment: Harmonizing Gene Annotations for Meta-Analysis of GSE68183 and GSE80178
Dotplot from enricher outputting very few genes
Answer: [How to construct a model.matrix ]
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