Showing : zebrafish • reset
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How to use goana function with zebrafish genome from org.Dr.eg.db
org.Dr.eg.db zebrafish limma
4 months ago Eric • 0
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2
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Need help annotating Affymetrix 1.1ST microarrays
oligo annotation affymetrix microarrays zebrafish
updated 9.2 years ago by ★ 4.1k • written 9.2 years ago by ▴ 80
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Importing and Extracting Annotation
annotation zebrafish probe
updated 9.6 years ago by 68k • written 9.6 years ago by • 0
9
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News: Ensembl release 80 is out!
biomart Ensembl zebrafish Rat 1000 genomes phase 3 News
updated 10.5 years ago by ▴ 390 • written 10.5 years ago by ▴ 800
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Interspecies differential expression of orthologs with Edger
RNASeq Normalization Organism zebrafish edgeR
updated 11.2 years ago by 53k • written 11.2 years ago by ▴ 140
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Useful information about Ensembl release 76 mart databases
Transcription zebrafish Transcription zebrafish
11.3 years ago Thomas Maurel ▴ 800
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2
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TxDb file for Drerio (ie zebrafish)
Organism zebrafish CRISPRseek Organism zebrafish CRISPRseek
updated 11.7 years ago by 68k • written 11.7 years ago by ▴ 10
1
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1
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Mapping Affymetrix annotations with Bioconductor annotations
Annotation Organism zebrafish cdf affy AnnotationForge Annotation Organism zebrafish cdf
updated 12.1 years ago by 68k • written 12.1 years ago by ▴ 80
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1.6k
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ChIPpeakAnno, getAnnotation question
Annotation zebrafish convert biomaRt ChIPpeakAnno Annotation zebrafish convert biomaRt
updated 12.1 years ago by ★ 4.3k • written 12.1 years ago by ▴ 10
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1.6k
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ChIPpeakAnno, getAnnotation question
Annotation GO zebrafish convert biomaRt ChIPpeakAnno Annotation GO zebrafish convert
updated 12.1 years ago by ★ 4.3k • written 12.1 years ago by ★ 13k
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1
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1.3k
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affymtrix transcript_cluster categories
Normalization zebrafish Normalization zebrafish
updated 12.1 years ago by 68k • written 12.1 years ago by ▴ 80
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2
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1.5k
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blast probe clusters when using Affymetrix Gene Array Strips
zebrafish zebrafish
updated 12.2 years ago by 68k • written 12.2 years ago by ▴ 80
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0
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1.9k
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Useful information about Ensembl release 71 mart databases
zebrafish PolyPhen SIFT affy genomes zebrafish PolyPhen SIFT affy genomes
12.6 years ago Thomas Maurel ▴ 800
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1.6k
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Help with Gviz \"IdeogramTrack\" and \"BioMartGeneTrackRegion\" commands
zebrafish biomaRt ideogram genomes zebrafish biomaRt ideogram genomes
12.7 years ago florian.hahne@novartis.com ★ 1.6k
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2.1k
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Help with Gviz \"IdeogramTrack\" and \"BioMartGeneTrackRegion\" commands
zebrafish biomaRt zebrafish biomaRt
updated 12.8 years ago by ★ 1.6k • written 12.8 years ago by ★ 13k
1
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1
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3.4k
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goseq/nullp with non-native identifiers
Annotation GO zebrafish goseq Annotation GO zebrafish goseq
updated 13.2 years ago by ▴ 100 • written 13.2 years ago by ▴ 140
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1
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1.9k
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Useful information about Ensembl release 67 mart databases
miRNA GO Caenorhabditis elegans Sus scrofa zebrafish PolyPhen SIFT miRNA GO Sus scrofa
13.5 years ago Thomas Maurel ▴ 800
0
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9
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2.4k
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Mapping microarray probes to the genome using findOverlaps
Microarray Alignment Annotation zebrafish probe Biostrings GenomicFeatures Microarray
updated 14.7 years ago by 21k • written 14.7 years ago by 16k
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3
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2.0k
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Mapping microarray probes to the genome using findOverlaps
Alignment Annotation zebrafish probe Alignment Annotation zebrafish probe
updated 14.7 years ago by 21k • written 14.7 years ago by ▴ 140
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0
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1.3k
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Agi4x44PreProcess - filter.probes function
Annotation GUI zebrafish probe PROcess Annotation GUI zebrafish probe PROcess
15.1 years ago Neel Aluru ▴ 460
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0
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1.4k
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Agi4x44PreProcess
GUI zebrafish probe AgiMicroRna GUI zebrafish probe AgiMicroRna
15.1 years ago Neel Aluru ▴ 460
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1
reply
1.5k
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Agi4x44PreProcess: Replicated Genes and Custom Annotation Database
Annotation zebrafish probe DECIPHER Annotation zebrafish probe DECIPHER
updated 15.3 years ago by ★ 7.2k • written 15.3 years ago by ▴ 40
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1
reply
1.4k
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Annotation in Agi4x44PreProcess
Annotation zebrafish probe Agi4x44PreProcess Annotation zebrafish probe Agi4x44PreProcess
updated 15.3 years ago by ★ 7.2k • written 15.3 years ago by ▴ 40
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1.7k
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AgiMicroRna - FilterMicroRna and SignificantMicroRna function
miRNA zebrafish probe AgiMicroRna miRNA zebrafish probe AgiMicroRna
15.5 years ago Neel Aluru ▴ 460
0
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1
reply
1.4k
views
GOstats - zebrafish
Annotation GO zebrafish probe Annotation GO zebrafish probe
updated 15.5 years ago by 68k • written 15.5 years ago by ▴ 460
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1.4k
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Ensembl mart release 57: Useful information
SNP GO Homo sapiens zebrafish SNP GO Homo sapiens zebrafish
15.7 years ago Rhoda Kinsella ▴ 660
0
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6
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1.5k
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annaffy can't saveHTML
Annotation zebrafish Annotation zebrafish
updated 15.7 years ago by 68k • written 15.7 years ago by ★ 1.5k
0
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1
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949
views
GOstats testing using EntrezGene IDs not in chip-specific annotation package?
GO zebrafish probe affy GOstats AnnotationDbi GO zebrafish probe affy GOstats
updated 15.8 years ago by ★ 2.0k • written 15.8 years ago by ★ 2.0k
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5
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1.8k
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Agilent zebrafish4x44 database
zebrafish zebrafish
updated 16.0 years ago by ★ 1.3k • written 16.0 years ago by ▴ 460
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0
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1.0k
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Bsgenome Zv7 sequence data
Cancer Danio rerio zebrafish Cancer Danio rerio zebrafish
16.3 years ago Hervé Pagès 16k
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1
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1.1k
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siggenes: sam2html + affymetrix zebrafish
zebrafish zebrafish
16.4 years ago Bio Sam ▴ 60
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0
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1.2k
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problem using annotation database with annaffy
Annotation GO zebrafish annaffy Annotation GO zebrafish annaffy
16.5 years ago Georg Otto ▴ 510
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1.2k
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Ensembl mart release 54: Useful information
Coverage zebrafish Coverage zebrafish
16.5 years ago Rhoda Kinsella ▴ 660
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0
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1.1k
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JoVE: New Video Articles on Biomedical Research Techniques
zebrafish zebrafish
16.5 years ago Moshe Pritsker, Editor, JoVE ▴ 20
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1
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1.6k
views
Group-wise gcrma normalization
Microarray Normalization Clustering zebrafish probe gcrma Microarray Normalization probe
updated 16.7 years ago by ★ 6.5k • written 16.7 years ago by ▴ 30
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2
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1.9k
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Help with loading newly created custom annotation db into R session
Annotation GO GUI zebrafish probe Annotation GO GUI zebrafish probe
updated 16.8 years ago by 68k • written 16.8 years ago by ▴ 300
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1
reply
1.0k
views
zebrafish annotation
Annotation zebrafish Annotation zebrafish
updated 17.1 years ago by ★ 7.2k • written 17.1 years ago by ▴ 60
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2
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1.9k
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agilent zebrafish array annotation
Annotation zebrafish AnnBuilder PROcess AnnotationDbi Annotation zebrafish AnnBuilder
17.6 years ago Georg Otto ▴ 510
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0
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1.1k
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homologs for xenopus laevis
Xenopus laevis zebrafish biomaRt Xenopus laevis zebrafish biomaRt
18.1 years ago Mayte Suarez-Farinas ▴ 510
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2
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1.4k
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simpleaffy QCstats and affyQAReport repost
zebrafish probe affy zebrafish probe affy
updated 18.3 years ago by ★ 1.1k • written 18.3 years ago by ▴ 70
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3
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1.5k
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chromosome plot
zebrafish geneplotter zebrafish geneplotter
updated 18.4 years ago by ★ 7.4k • written 18.4 years ago by ▴ 160
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0
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1.0k
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agilent zebrafish array annotation package
zebrafish zebrafish
19.8 years ago Georg Otto ▴ 510
0
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1
reply
1.5k
views
biomaRt gives only NA output
drosgenome1 zebrafish biomaRt drosgenome1 zebrafish biomaRt
updated 20.1 years ago by ▴ 420 • written 20.1 years ago by ▴ 150
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1.6k
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biomaRt zebrafish
zebrafish biomaRt zebrafish biomaRt
20.2 years ago Steffen Durinck ▴ 420
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0
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1.4k
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biomaRt zebrafish
zebrafish biomaRt zebrafish biomaRt
20.2 years ago Georg Otto ▴ 510
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2
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1.5k
views
zebrafish simpleaffy Error in FUN(X[[4]], ...) : subscript out of bounds
zebrafish cdf probe reposTools gcrma matchprobes simpleaffy zebrafish cdf probe gcrma
updated 20.3 years ago by ▴ 780 • written 20.3 years ago by ★ 1.4k
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1
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1.5k
views
zebrafish simpleaffy Error in FUN(X[[4]], ...) : subscript out of bounds
zebrafish cdf probe reposTools gcrma matchprobes simpleaffy zebrafish cdf probe gcrma
updated 20.3 years ago by ★ 1.4k • written 20.3 years ago by ★ 1.1k
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4
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1.5k
views
Error in AnnBuilder writeAnnData2Pkg
Annotation zebrafish AnnBuilder Annotation zebrafish AnnBuilder
updated 20.5 years ago by ★ 2.9k • written 20.5 years ago by ▴ 510
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0
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1.0k
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QC questions
zebrafish cdf makecdfenv simpleaffy zebrafish cdf makecdfenv simpleaffy
21.1 years ago Crispin Miller ★ 1.1k
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votes
1
reply
995
views
problems using cdfenv
zebrafish cdf makecdfenv simpleaffy zebrafish cdf makecdfenv simpleaffy
updated 21.1 years ago by 68k • written 21.1 years ago by ▴ 510
53 results • Page 1 of 2
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Comment: After running samtools, the featureCounts command crashed. by eja.gssssse.r.m • 0
The buffer overflow detected error in your featureCount step usually indicates that the program is trying to write more data into memory …
Comment: gene Set with high AUC score but no cells assigned to cell type by eja.gssssse.r.m • 0
It sounds like your AUCell results may be showing high AUC scores without cell assignment due to thresholding or scoring cutoffs. Think of …
Answer: "Watched Tags" are being erased rather than updated by shepherl 4.2k
This should now be resolved
Answer: Question about collapsing ASVs by genus level during DESeq2 analysis by Michael Love 43k
I'll just note that microbiome stats folks tend to use other tools than DESeq2. > several ASVs belong to the same genus but are not iden…
Comment: Integration: Paired-end vs healthy single-end from a different source by igkryycpinmshzugby • 0
Yes, Option 1 (technical homogenization) reprocessing paired-end samples as single-end using only R1 is the most defensible approach when l…
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Bioconductor 3.22 Released!
Bioconductor 3.22 Released!
Comment: "Watched Tags" are being erased rather than updated
Comment: deseq2 filter the low counts
Answer: DESeq2 interactions
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