Showing : genomes • reset
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affymetrix
genomes Annotation
updated 14 hours ago by 67k • written 1 day ago by • 0
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1
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109
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Correlation between gene clusters
genomes RNASeqData
written 16 days ago by • 0
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5
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Spam: <img/src/onerror=alert&#xFEFF;(1337)>
genomes rgu34cprobe
8 weeks ago <img/src/onerror=alert&#xFEFF;(1337)> 0
2
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5
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873
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Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac ("trying to load regions beyond the boundaries of non-circular sequenc…
genomes BSgenome.Mmusculus.UCSC.mm39
updated 8 weeks ago by 67k • written 8 weeks ago by • 0
0
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3
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456
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ChIPpeakAnno can not load data
genomes ChIPpeakAnno
written 4 months ago by • 0
0
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0
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154
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ChIP peaks comparison
ChIPSeqData genomes ChIPSeq
11 weeks ago user_bioinfo • 0
0
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0
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167
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Combining two closely related bacterial annotated genomes to analyze as one pooled group
genomes RNASeq
11 weeks ago brayas13 • 0
0
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1
reply
294
views
probe ID search for SNP (plink)
genomes
updated 11 weeks ago by 67k • written 12 weeks ago by • 0
1
vote
6
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782
views
New to Deseq2 - DEG questions / MA plot
genomes DESeq2 Transcriptomics
updated 3 months ago by ★ 4.6k • written 3 months ago by • 0
0
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0
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243
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WGCNA: Problem with selecting soft threshold
biologicalnetworkanalysis genomes RNA-Seq co-expression wgcna
4 months ago Fernanda • 0
0
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1
reply
297
views
For feline genome
genomes Analysisoffelinegenome
updated 4 months ago by 67k • written 4 months ago by • 0
2
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5
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749
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Trying to convert ATACseq annotations of non-model species into human orthologs, but not sure of what to do.
genomes ATACSeq
4 months ago ronin • 0
0
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0
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318
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Mark seleced variables in the x-loading plot
OPLS genomes Proteomics
4 months ago Ragnhild • 0
0
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0
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340
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Job: Ensembl Job Vacancies
genomes Annotation GenomicVariation ensembldb
4 months ago Aleena ▴ 30
0
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0
replies
644
views
Job: Bioinformatics Research Associate in Transcriptomics, Epigenomics and Multi-omics
genomes
14 months ago JP Carter ▴ 40
0
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0
replies
632
views
Job: Bioinformatics Research Associate, Genomics and Genetics
genomes Genetics
14 months ago JP Carter ▴ 40
1
vote
1
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586
views
MSc student
genomes
updated 2.0 years ago by ▴ 780 • written 2.0 years ago by • 0
0
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2
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3.4k
views
How to get the rsID of 4 million SNPA
ensembldb SNP SNPData genomes
written 2.9 years ago by • 0
0
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0
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1.1k
views
How to assign custom colour codes for Multiple sequence alignment (MSA)?
Phylogenetics genomes R MultipleSequenceAlignment Bioconductor
3.4 years ago K. • 0
1
vote
0
replies
1.6k
views
Job: Bioinformatician/Computational Biologist - Dublin City, Ireland
bioinformatician job computational biology genomes pathways machine learning Job
7.3 years ago bulfin.triona ▴ 10
0
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0
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1.2k
views
How to generate CpG island Unmasked.bed file format for finding CpG island shores and shelves?
bioconductor annotation rtracklayer genomes homo.sapiens
7.6 years ago sivabala76 • 0
0
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5
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1.8k
views
Extracting all possible annotations between two genomic coordinates
genomes
7.9 years ago KB ▴ 50
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0
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1.3k
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vizualization of mutations
genomes SNP
8.3 years ago Bogdan ▴ 670
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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
8.4 years ago dtlabmskcc • 0
1
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1
reply
1.8k
views
GenomeViz
Proteomics genomes Proteomics genomes
updated 8.9 years ago by • 0 • written 20.0 years ago by ▴ 80
0
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1
reply
1.4k
views
Request: Add Macaca fascicularis genome to BSgenome
bsgenome genomes
updated 9.6 years ago by 16k • written 9.7 years ago by • 0
0
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0
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1.7k
views
Job: Harvard Medical School: Postdoctoral Opportunity
genomes Job
10.3 years ago Doe, Aimee ▴ 40
0
votes
8
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3.2k
views
Best practices to find intersection among variants
VariantAnnotation genomes VariantAnnotation VariantAnnotation genomes VariantAnnotation
updated 10.4 years ago by ★ 1.3k • written 10.4 years ago by ▴ 220
2
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3
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5.5k
views
Linkage disequilibrium with 1000 Genomes/HapMap
HapMap genomes HapMap genomes
10.5 years ago enricoferrero ▴ 660
0
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3
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1.8k
views
Elephant shark genome
Biostrings genomes Biostrings genomes
updated 10.8 years ago by 25k • written 10.8 years ago by ★ 13k
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1
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2.2k
views
It works! RE: So close, but still error: RE: Rsamtools filtering bam file: RE: MEDIPS.createSet error
Alignment GO Cancer BSgenome BSgenome Rsamtools genomes MEDIPS Alignment GO Cancer
updated 10.8 years ago by ▴ 570 • written 10.8 years ago by ▴ 220
0
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1
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1.7k
views
GOseq with ce6
GO Yeast Organism goseq genomes GO Yeast Organism goseq genomes
updated 10.8 years ago by ▴ 320 • written 10.8 years ago by ▴ 50
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0
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1.8k
views
Trying to use BSgenome.Hsapiens.NCBI.GRCh38
Cancer BSgenome BSgenome genomes Cancer BSgenome BSgenome genomes
10.8 years ago Hervé Pagès 16k
0
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1.9k
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So close, but still error: RE: Rsamtools filtering bam file: RE: MEDIPS.createSet error
Alignment GO Cancer BSgenome BSgenome Rsamtools genomes MEDIPS Alignment GO Cancer
updated 10.8 years ago by ▴ 570 • written 10.8 years ago by ▴ 220
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5
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2.2k
views
Rsamtools filtering bam file: RE: MEDIPS.createSet error
GO BSgenome BSgenome Rsamtools genomes MEDIPS GO BSgenome BSgenome Rsamtools genomes
updated 10.8 years ago by 25k • written 10.8 years ago by ▴ 220
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3
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2.4k
views
Find enriched GO terms, given a list of GO terms of interest and background GO terms
Annotation GO topGO genomes Annotation GO topGO genomes
11.0 years ago Guest User ★ 13k
0
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1
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1.8k
views
makeTranscriptDbFromUCSC() error
genomes genomes
11.0 years ago Chris Cabanski ▴ 30
0
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2
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2.4k
views
ensemblVEP, variant_effect_predictor versions and release schedule
Transcription HapMap PolyPhen SIFT convert genomes ensemblVEP Transcription HapMap SIFT
updated 11.0 years ago by ★ 6.8k • written 11.0 years ago by ▴ 30
0
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1
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2.4k
views
Pairwise Alignment on Large Protein Sequence Data Set
Alignment genomes Alignment genomes
updated 11.1 years ago by 16k • written 11.1 years ago by ★ 13k
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0
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1.6k
views
Gviz and Leishmania genomes
rtracklayer genomes Gviz rtracklayer genomes Gviz
11.2 years ago florian.hahne@novartis.com ★ 1.6k
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2.0k
views
Create a sample file /tab delimited file in QuasR
BSgenome convert BSgenome genomes QuasR BSgenome convert BSgenome genomes QuasR
11.2 years ago Michael Stadler ▴ 350
0
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1
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1.8k
views
makeTranscriptDbFromGFF fails on NCBI Bacteria genomes
GO TranscriptDb goseq genomes GO TranscriptDb goseq genomes
updated 11.3 years ago by ★ 7.2k • written 11.3 years ago by ▴ 80
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1
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1.7k
views
Lifting over a bam file with Rsamtools and GenomicRanges
GenomicRanges genomes GenomicRanges genomes
updated 11.3 years ago by ★ 11k • written 11.3 years ago by ★ 13k
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0
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1.3k
views
SnpStats - STRING_ELT() error and Fst
genomes genomes
11.4 years ago Voke AO ▴ 760
0
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1
reply
1.5k
views
Working with non-type strain annotation
Proteomics GO genomes Proteomics GO genomes
updated 11.7 years ago by ★ 7.2k • written 11.7 years ago by ▴ 70
0
votes
8
replies
3.6k
views
QuasR: how to use an indexed reference genome?
BSgenome BSgenome genomes QuasR BSgenome BSgenome genomes QuasR
updated 11.7 years ago by ▴ 350 • written 11.7 years ago by ▴ 750
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2
replies
1.8k
views
QuasR special case alignment
Alignment genomes QuasR Alignment genomes QuasR
updated 11.7 years ago by ▴ 340 • written 11.7 years ago by ▴ 350
0
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6
replies
1.8k
views
coverage on very large ReadGappedAlignmentsObject
Coverage genomes Coverage genomes
updated 11.7 years ago by 25k • written 11.7 years ago by ▴ 360
0
votes
1
reply
2.1k
views
Help needed! What wrong with VariantAnnotation and TCGA vcfs
VariantAnnotation genomes VariantAnnotation VariantAnnotation genomes VariantAnnotation
updated 11.8 years ago by 25k • written 11.8 years ago by ▴ 340
0
votes
0
replies
1.7k
views
Useful information about Ensembl release 71 mart databases
zebrafish PolyPhen SIFT affy genomes zebrafish PolyPhen SIFT affy genomes
11.8 years ago Thomas Maurel ▴ 800
50 results • Page 1 of 1
Recent ...
Replies
Comment: How can I generate a heatmap and clustering of differentially expressed genes in by Renuka • 0
Thanks Kelvin i had same doubt .Do i need to do log2 (FPKMcounts) for this
Comment: Is there a way to do DEG analysis across two batches sharing one sample only? by georgeyu703 • 0
Michael, Thank you very much!
Comment: Is there a way to do DEG analysis across two batches sharing one sample only? by Michael Love 43k
Yes, with the knowledge that, it is expected to be underpowered.
Comment: Is there a way to do DEG analysis across two batches sharing one sample only? by georgeyu703 • 0
Thank you, Michael. How? Could you provide more details? Can I just do it as usual, I mean to include batch in the model?
Answer: Is there a way to do DEG analysis across two batches sharing one sample only? by Michael Love 43k
The short answer is yes, you can use even a single sample to estimate the batch effect (and therefore control for it in otherwise confounde…
Votes
Answer: SingleCellExperiment convenience function for metadata+expression?
How to correct for tumor purity using DESeq2 to analyze TCGA tumor sample expression.
Answer: EdgeR Biological CVs
Answer: Error in download.file for TCGAutils::symbolsToRanges
Answer: Error in download.file for TCGAutils::symbolsToRanges
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