Showing : genomes • reset
2
votes
3
replies
5.1k
views
Linkage disequilibrium with 1000 Genomes/HapMap
HapMap genomes HapMap genomes
9.8 years ago enricoferrero ▴ 660
0
votes
3
replies
4.8k
views
how to get gene list for given GO terms?
Pathways GO Cancer PROcess goTools genomes Pathways GO Cancer PROcess goTools genomes
updated 22 months ago by • 0 • written 12.1 years ago by ★ 7.2k
0
votes
8
replies
3.2k
views
QuasR: how to use an indexed reference genome?
BSgenome BSgenome genomes QuasR BSgenome BSgenome genomes QuasR
updated 10.9 years ago by ▴ 350 • written 10.9 years ago by ▴ 750
0
votes
8
replies
2.8k
views
Best practices to find intersection among variants
VariantAnnotation genomes VariantAnnotation VariantAnnotation genomes VariantAnnotation
updated 9.7 years ago by ★ 1.3k • written 9.7 years ago by ▴ 220
0
votes
1
reply
2.7k
views
GenomeViz again : corrected link
Proteomics genomes Proteomics genomes
updated 19.2 years ago by ▴ 210 • written 19.2 years ago by ▴ 80
0
votes
2
replies
2.5k
views
How to get the rsID of 4 million SNPA
ensembldb SNP SNPData genomes
written 2.2 years ago by • 0
0
votes
13
replies
2.3k
views
How to plot NGS data?
GO BSgenome geneplotter PROcess BSgenome genomes GO BSgenome geneplotter PROcess genomes
updated 12.2 years ago by 25k • written 12.2 years ago by ▴ 30
0
votes
1
reply
2.3k
views
Pairwise Alignment on Large Protein Sequence Data Set
Alignment genomes Alignment genomes
updated 10.3 years ago by 16k • written 10.3 years ago by ★ 13k
0
votes
3
replies
2.3k
views
seqlevels in VCF objects
BSgenome BSgenome genomes BSgenome BSgenome genomes
updated 11.3 years ago by ★ 6.8k • written 11.3 years ago by ▴ 70
0
votes
2
replies
2.2k
views
ensemblVEP, variant_effect_predictor versions and release schedule
Transcription HapMap PolyPhen SIFT convert genomes ensemblVEP Transcription HapMap SIFT
updated 10.3 years ago by ★ 6.8k • written 10.3 years ago by ▴ 30
0
votes
1
reply
2.0k
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 10.0 years ago by ▴ 570 • written 10.1 years ago by ▴ 220
0
votes
2
replies
1.9k
views
E. coli annotation to map?
biomaRt genomes biomaRt genomes
updated 13.7 years ago by ▴ 500 • written 13.7 years ago by ▴ 40
0
votes
3
replies
1.9k
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
10.3 years ago Guest User ★ 13k
0
votes
5
replies
1.9k
views
Rsamtools filtering bam file: RE: MEDIPS.createSet error
GO BSgenome BSgenome Rsamtools genomes MEDIPS GO BSgenome BSgenome Rsamtools genomes
updated 10.1 years ago by 25k • written 10.1 years ago by ▴ 220
0
votes
1
reply
1.9k
views
Help needed! What wrong with VariantAnnotation and TCGA vcfs
VariantAnnotation genomes VariantAnnotation VariantAnnotation genomes VariantAnnotation
updated 11.0 years ago by 25k • written 11.0 years ago by ▴ 340
0
votes
0
replies
1.8k
views
Create a sample file /tab delimited file in QuasR
BSgenome convert BSgenome genomes QuasR BSgenome convert BSgenome genomes QuasR
10.5 years ago Michael Stadler ▴ 350
0
votes
1
reply
1.7k
views
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 10.1 years ago by ▴ 570 • written 10.1 years ago by ▴ 220
0
votes
2
replies
1.7k
views
Bacterial genomics
Sequencing Microarray qPCR genomes Sequencing Microarray qPCR genomes
updated 13.7 years ago by 16k • written 13.7 years ago by ▴ 30
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
0
votes
0
replies
1.7k
views
Postdoctoral positions at EMBL
Sequencing Genetics GO Network Cancer genomes Sequencing Genetics GO Network Cancer
12.6 years ago Wolfgang Huber ★ 13k
0
votes
5
replies
1.6k
views
Contrast Problem
genomes genomes
updated 11.8 years ago by 50k • written 11.8 years ago by ▴ 50
0
votes
1
reply
1.6k
views
makeTranscriptDbFromUCSC() error
genomes genomes
10.3 years ago Chris Cabanski ▴ 30
1
vote
1
reply
1.6k
views
GenomeViz
Proteomics genomes Proteomics genomes
updated 8.2 years ago by • 0 • written 19.2 years ago by ▴ 80
0
votes
1
reply
1.6k
views
makeTranscriptDbFromGFF fails on NCBI Bacteria genomes
GO TranscriptDb goseq genomes GO TranscriptDb goseq genomes
updated 10.5 years ago by ★ 7.2k • written 10.5 years ago by ▴ 80
0
votes
2
replies
1.6k
views
QuasR special case alignment
Alignment genomes QuasR Alignment genomes QuasR
updated 11.0 years ago by ▴ 340 • written 11.0 years ago by ▴ 350
0
votes
2
replies
1.6k
views
Building custom genome in MeDIPS
BSgenome BSgenome genomes MEDIPS BSgenome BSgenome genomes MEDIPS
updated 11.6 years ago by 65k • written 11.6 years ago by ▴ 10
0
votes
6
replies
1.6k
views
coverage on very large ReadGappedAlignmentsObject
Coverage genomes Coverage genomes
updated 11.0 years ago by 25k • written 11.0 years ago by ▴ 360
0
votes
2
replies
1.6k
views
a workflow of population genomic operations/analysis using bioconductor
Genetics genomes Genetics genomes
updated 13.4 years ago by ★ 11k • written 13.4 years ago by ▴ 290
0
votes
8
replies
1.6k
views
Gene Lists and Genomes
GO genomes GO genomes
updated 13.0 years ago by ★ 4.2k • written 13.0 years ago by ▴ 240
0
votes
0
replies
1.5k
views
Job: Harvard Medical School: Postdoctoral Opportunity
genomes Job
9.5 years ago Doe, Aimee ▴ 40
0
votes
4
replies
1.5k
views
How can I obtain gene name from chromosome location?
Lung charm genomes Lung charm genomes
updated 11.8 years ago by ★ 13k • written 11.8 years ago by ▴ 110
0
votes
2
replies
1.5k
views
VariantAnnotation: readVcf on nonmodel organism
Organism genomes Organism genomes
updated 11.6 years ago by ★ 6.8k • written 11.6 years ago by ▴ 40
0
votes
1
reply
1.5k
views
GOseq with ce6
GO Yeast Organism goseq genomes GO Yeast Organism goseq genomes
updated 10.0 years ago by ▴ 310 • written 10.0 years ago by ▴ 50
0
votes
1
reply
1.5k
views
Lifting over a bam file with Rsamtools and GenomicRanges
GenomicRanges genomes GenomicRanges genomes
updated 10.6 years ago by ★ 11k • written 10.6 years ago by ★ 13k
0
votes
4
replies
1.5k
views
rtracklayer and UCSC
rtracklayer genomes rtracklayer genomes
updated 14.9 years ago by ▴ 620 • written 14.9 years ago by ★ 6.5k
0
votes
0
replies
1.5k
views
Useful information about Ensembl release 71 mart databases
zebrafish PolyPhen SIFT affy genomes zebrafish PolyPhen SIFT affy genomes
11.0 years ago Thomas Maurel ▴ 800
0
votes
0
replies
1.5k
views
Trying to use BSgenome.Hsapiens.NCBI.GRCh38
Cancer BSgenome BSgenome genomes Cancer BSgenome BSgenome genomes
10.0 years ago Hervé Pagès 16k
0
votes
3
replies
1.5k
views
Elephant shark genome
Biostrings genomes Biostrings genomes
updated 10.0 years ago by 25k • written 10.0 years ago by ★ 13k
0
votes
6
replies
1.5k
views
[Hinxton #251937] RE: GenomicFeatures::makeTranscriptDbFromBiomart - BioMart data anomaly: for some transcripts, the cds cumulative length inferred f…
Cancer Organism biomaRt GenomicFeatures genomes Cancer Organism biomaRt GenomicFeatures
updated 12.1 years ago by ▴ 660 • written 12.1 years ago by 16k
0
votes
2
replies
1.5k
views
Limit on number of sequence files for forging a BSgenome
GO Cancer BSgenome BSgenome genomes GO Cancer BSgenome BSgenome genomes
11.1 years ago Hervé Pagès 16k
0
votes
1
reply
1.5k
views
Gviz: Error plotting C.elegans ideogram
ideogram genomes Gviz ideogram genomes Gviz
11.8 years ago Michael Dondrup ▴ 550
0
votes
0
replies
1.4k
views
Gviz and Leishmania genomes
rtracklayer genomes Gviz rtracklayer genomes Gviz
10.4 years ago florian.hahne@novartis.com ★ 1.6k
0
votes
0
replies
1.4k
views
Biostatistician position in London
Cancer genomes Cancer genomes
11.0 years ago Kathi Zarnack ▴ 110
1
vote
0
replies
1.4k
views
Job: Bioinformatician/Computational Biologist - Dublin City, Ireland
bioinformatician job computational biology genomes pathways machine learning Job
6.5 years ago bulfin.triona ▴ 10
0
votes
5
replies
1.4k
views
Extracting all possible annotations between two genomic coordinates
genomes
7.2 years ago KB ▴ 50
0
votes
0
replies
1.3k
views
Job Announcement: Genome Informatics
Sequencing Genetics genomes Sequencing Genetics genomes
12.1 years ago Jenny Drnevich ★ 2.0k
0
votes
0
replies
1.3k
views
[Hinxton #251937] RE: GenomicFeatures::makeTranscriptDbFromBiomart - BioMart data anomaly: for some transcripts, the cds cumulative length inferred f…
Cancer Organism biomaRt genomes Cancer Organism biomaRt genomes
12.0 years ago Malcolm Cook ★ 1.6k
0
votes
0
replies
1.3k
views
Job: Research Associate in Bioinformatics, Cambridge, UK
Sequencing genomes Sequencing genomes
11.7 years ago Krys Kelly ▴ 270
0
votes
3
replies
1.3k
views
VCF predictCoding(...) providing inconsistent results?
genomes genomes
11.3 years ago Murat Tasan ▴ 70
0
votes
3
replies
1.3k
views
Complementing alleles in a VCF
VariantAnnotation BSgenome BSgenome genomes VariantAnnotation VariantAnnotation BSgenome
updated 12.0 years ago by 25k • written 12.0 years ago by ▴ 650
50 results • Page 1 of 1
Recent ...
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Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Robert Castelo ★ 3.2k
Hi, your `c2` object storing all the gene sets is probably a `list` object, where element names are the names of the pathways given by MSig…
Comment: Differential peaks that were not identified in diffbind were identified in diseq by lonn • 0
I tried the default normalization and got similar results as above. Perhaps I need to try identifying the difference peak without using dif…
Answer: Cannabis and KEGGgraph by deeenes ▴ 30
Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…
Answer: RNAseq:Technical replicates from different batches by Gordon Smyth 50k
I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…
Comment: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param by russ.bainer ▴ 10
Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…
Votes
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
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
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