Difference between revisions of "FlyBase:Complete list of GBrowse/JBrowse Track Differences"

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= Complete list of Data Tracks present in GBrowse but not in JBrowse =
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{| class="wikitable" style="text-align: center; color: red; margin: auto;"
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!colspan="1"|Warning
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|rowspan="1"|Information about GBrowse is only relevant to users of an [http://flybase.org/downloads/archivedata archived] instance of FlyBase earlier than FB2022_05.
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For users working with the current release at [http://flybase.org/ flybase.org], please see our page about [[FlyBase:JBrowse]], the genome viewer that replaced GBrowse.
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|}
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= Data Tracks present in GBrowse but not in JBrowse =
  
 
{|cellpadding=3
 
{|cellpadding=3
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!style="background: #efefef;"| Basic Tracks
 
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|style="white-space: nowrap;"| CDS track
 
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|style="white-space: nowrap;"| Restriction Sites
 
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!style="background: #efefef;"| Transcription Start Sites
 
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|style="white-space: nowrap;"| RAMPAGE (stage specific)
 
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|style="white-space: nowrap;"| MachiBase
 
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!style="background: #efefef;"| Mapped Mutations
 
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|style="white-space: nowrap;"| Transgenic insertions in stocks (Bloomington, Kyoto, Harvard Medical School)
 
 
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!style="background: #efefef;"| Gene Predictions
 
!style="background: #efefef;"| Gene Predictions
 
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|style="white-space: nowrap;"| Gene Predictions (NCBI Gnomon, CONTRAST, PhyloCSF)
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|style="white-space: nowrap;"| CONTRAST
 
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!style="background: #efefef;"| Protein Similarity
 
!style="background: #efefef;"| Protein Similarity
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|style="white-space: nowrap;"| Similarity to Other proteins
 
|style="white-space: nowrap;"| Similarity to Other proteins
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!style="background: #efefef;"| Noncoding Features
 
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|style="white-space: nowrap;"| TFBS - mesoderm
 
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|style="white-space: nowrap;"| Chromatin Domains
 
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|style="white-space: nowrap;"| Histone Modifications
 
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!style="background: #efefef;"| Microarray Features
 
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|style="white-space: nowrap;"| Affymetrix
 
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|style="white-space: nowrap;"| DGRC amplicons
 
 
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!style="background: #efefef;"| RNA-Seq
 
!style="background: #efefef;"| RNA-Seq
 
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|style="white-space: nowrap;"| RNA-Seq Developmental Stages, unstranded (Baylor)
 
|style="white-space: nowrap;"| RNA-Seq Developmental Stages, unstranded (Baylor)
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|style="white-space: nowrap;"| Track identities available in color-coded table
 
 
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|style="white-space: nowrap;"| Configure RNA-Seq view (log2 or linear scaling, tilted or vertical tracks, track spacing, track selection)
 
|style="white-space: nowrap;"| Configure RNA-Seq view (log2 or linear scaling, tilted or vertical tracks, track spacing, track selection)
 
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!style="background: #efefef;"| Aberrations
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!style="background: #efefef;"| Other Reagents
 
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|style="white-space: nowrap;"| Stock Center Aberrations
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|style="white-space: nowrap;"| BAC clones (Tiling)
 
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|style="white-space: nowrap;"| Bloomington Deficiency Kit
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!style="background: #efefef;"| Analysis
 
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!style="background: #efefef;"| Other Reagents
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|style="white-space: nowrap;"| Restriction Sites
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|style="white-space: nowrap;"| BAC clones (Tiling, Pacman)
 
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|style="white-space: nowrap;"| VDRC Vienna Tiles GAL4 lines
 
 
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{|cellpadding=3
 
{|cellpadding=3
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!style="background: #efefef;"| Aligned Evidence
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|style="white-space: nowrap;"| proteomic peptides
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|style="white-space: nowrap;"| Polyadenylation sites
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!style="background: #efefef;"| Noncoding Features
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|style="white-space: nowrap;"| Putative Brain Enhancers (Janelia GAL4 lines)
 
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!style="background: #efefef;"| Genome Variation Data
 
!style="background: #efefef;"| Genome Variation Data
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|style="white-space: nowrap;"| DGRP Variants
 
|style="white-space: nowrap;"| DGRP Variants
 
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!style="background: #efefef;"|sgRNA Reagents
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!style="background: #efefef;"| sgRNA Reagents
 
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|style="white-space: nowrap;"| Predicted sgRNA
 
|style="white-space: nowrap;"| Predicted sgRNA
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|style="white-space: nowrap;"| Heidelberg CFD KO sgRNAs (conditional knockout)
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|style="white-space: nowrap;"| TRiP-OE-flySAM.dCas9 sgRNAs (overexpression)
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|style="white-space: nowrap;"| Weizmann KO sgRNAs (knockout)
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!style="background: #efefef;"| Expression Levels: RNA-Seq
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|style="white-space: nowrap;"| SRA aggregated RNA-Seq (Oliver lab)
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|style="white-space: nowrap;"| FlyAtlas2 (various tissues)
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!style="background: #efefef;"| Expression Levels: Small RNA-Seq
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|style="white-space: nowrap;"| FlyAtlas2 (various tissues)
 
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Latest revision as of 17:48, 14 December 2022

Warning
Information about GBrowse is only relevant to users of an archived instance of FlyBase earlier than FB2022_05.

For users working with the current release at flybase.org, please see our page about FlyBase:JBrowse, the genome viewer that replaced GBrowse.


Data Tracks present in GBrowse but not in JBrowse

Gene Predictions
CONTRAST
Protein Similarity
Similarity to Dmel proteins
Similarity to Other proteins
RNA-Seq
RNA-Seq Developmental Stages, unstranded (Baylor)
Configure RNA-Seq view (log2 or linear scaling, tilted or vertical tracks, track spacing, track selection)
Other Reagents
BAC clones (Tiling)
Analysis
Restriction Sites


Data Tracks present in JBrowse but not in GBrowse

Aligned Evidence
proteomic peptides
Polyadenylation sites
Noncoding Features
Putative Brain Enhancers (Janelia GAL4 lines)
Genome Variation Data
DGRP Variants
sgRNA Reagents
Predicted sgRNA
Heidelberg CFD KO sgRNAs (conditional knockout)
TRiP-OE-flySAM.dCas9 sgRNAs (overexpression)
Weizmann KO sgRNAs (knockout)
Expression Levels: RNA-Seq
SRA aggregated RNA-Seq (Oliver lab)
FlyAtlas2 (various tissues)
Expression Levels: Small RNA-Seq
FlyAtlas2 (various tissues)
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