Showing : sequencing • reset
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News: Course Manipulation of NGS Data for Genomic and Population Genetics Analyses
sequencing Sequencing SequencingData
6 months ago communication • 0
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0
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509
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is Dada2 biased toward a particular sequence ?
virology dada2 amplican Sequencing RNASeq
12 months ago Sara • 0
2
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5
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1.9k
views
Merge GRanges, ignore strand
Sequencing SummarizedExperiment GRanges
2.2 years ago Marcus • 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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918
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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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1.8k
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Batch effect from to sequencing data at differents depths
Sequencing sequencingDeepth BatchEffect DESeq2
3.0 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
3.0 years ago chao.xing • 0
1
vote
3
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1.0k
views
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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983
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is the P value reliable if the counts are Low across the sample ?
DESeq2 sequencing
3.6 years ago simplyphage • 0
0
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0
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1.1k
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Job: Tenure-track Group Leader Position in Computational Biology
bioinformatics sequencing barcelona proteomics
3.7 years ago Robert Castelo ★ 3.4k
0
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0
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1.3k
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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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1.1k
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Job: Scientist/Senior Scientist, Statistical Geneticist
Sequencing Genetics GeneticsPed statistics
3.8 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
views
Job: Post-doc fellow - Aparicio Lab
single cell bioinformatics genome sequencing Job
5.1 years ago jmaanaki • 0
0
votes
2
replies
1.5k
views
DESeq2 error on analyzing microbiome data
deseq2 microbiome sequencing
5.3 years ago zhigang.li • 0
2
votes
3
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1.7k
views
Boxplot function not showing all reads length on x-axis
boxplot reads fastq sequencing rsubread
updated 5.4 years ago by ★ 3.6k • written 5.4 years ago by ▴ 60
0
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1
reply
960
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Annotating protein sequences
Protein iranges sequencing
5.6 years ago ieuangw • 0
0
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0
replies
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
1.1k
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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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949
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Number of reads needed for Guide-Seq
sequencing
6.5 years ago Jacques-P.Tremblay • 0
1
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1
reply
3.3k
views
Rsamtools : separating mapped and unmapped reads from BAM or SAM files (for a newbie)
R sequencing alignment rsamtools mapping
updated 6.5 years ago by 67k • written 6.5 years ago by ▴ 10
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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
2.1k
views
write ab1 files
sangerseqr sequencing abi
7.1 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 7.4 years ago by 42k • written 7.4 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
0
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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 14.5 years ago by ★ 1.6k
8
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2
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4.0k
views
Appropriate ways to filter counts data for voom/limma
limma edger sequencing
updated 8.2 years ago by 51k • written 8.2 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 8.7 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
1.8k
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 9.2 years ago by ★ 13k • written 9.2 years ago by ▴ 420
3
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0
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1.9k
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News: BioCAsia, 8 Sept 2015, Tokyo
sequencing transcription epigenomics visualization infrastructure News
9.4 years ago • updated 9.2 years ago Matthew Ritchie ▴ 1000
0
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2
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1.8k
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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 10.6 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 9.3 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 9.3 years ago by ★ 28k • written 9.3 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
replies
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
7.3k
views
DESeq2 Error in estimateSizeFactorsForMatrix
Sequencing Alignment DESeq DESeq2 Sequencing Alignment DESeq DESeq2
updated 9.4 years ago by • 0 • written 10.4 years ago by ★ 13k
50 results • Page 1 of 1
Recent ...
Replies
Comment: Consistent Decimals In Data After Antibody Array Background Correction Using Lim by Ai • 0
Hi Gordon, Thank you so much for answering my question and confirming that this is expected! I will go ahead note this down. Sincerely, …
Answer: Annotation for EPICv2 by icecreamlover • 0
Hello, I am also working on analyzing my data from EPICv2 using ChAMP. I used this resource as a guide: https://github.com/YuanTian1991/ChA…
Comment: Combining RNAseq and microarray data using edgeR/limma-voom by James W. MacDonald 67k
And it doesn't matter if you're doing gene set analyses after, if the statistics are questionable to begin with.
Comment: Combining RNAseq and microarray data using edgeR/limma-voom by James W. MacDonald 67k
If you're saying that (as an example) you have treated and control in both assay types, and you want to combine and make comparisons betwee…
Comment: incomplete official symbol mitochondrial genes in org.Hs.eg.db? by Guido Hooiveld ★ 4.1k
I have contacted NCBI, and meanwhile got an an answer. See below. It turns out that the official, HGNC-approved symbols are present in the…
Votes
Answer: Consistent Decimals In Data After Antibody Array Background Correction Using Lim
A: How does edgeR cpm function calculate log(CPM) values?
Answer: DecideTest vs topTAGs in edgeR
Comment: DESeq Input from Salmon + tximport/tximeta
Comment: DESeq Input from Salmon + tximport/tximeta
Awards • All
Popular Question to Denise • 0
Popular Question to Assa Yeroslaviz ★ 1.5k
Popular Question to Gordon Smyth 51k
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Popular Question to James W. MacDonald 67k
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