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

From FlyBase Wiki
Jump to navigation Jump to search
(3 intermediate revisions by one other user not shown)
Line 1: Line 1:
−
= Complete list of Data Tracks present in GBrowse but not in JBrowse =
+
= Data Tracks present in GBrowse but not in JBrowse =
  
 
{|cellpadding=3
 
{|cellpadding=3
 
|-
 
|-
−
!style="background: #efefef;"| Basic Tracks
+
!style="background: #efefef;"| Gene Predictions
 
|-
 
|-
−
|style="white-space: nowrap;"| CDS track
+
|style="white-space: nowrap;"| CONTRAST
 
|-
 
|-
−
|style="white-space: nowrap;"| Restriction Sites
+
!style="background: #efefef;"| Protein Similarity
 
|-
 
|-
−
!style="background: #efefef;"| Transcription Start Sites
+
|style="white-space: nowrap;"| Similarity to Dmel proteins
 
|-
 
|-
−
|style="white-space: nowrap;"| RAMPAGE (stage specific)
+
|style="white-space: nowrap;"| Similarity to Other proteins
 
|-
 
|-
−
|style="white-space: nowrap;"| MachiBase
+
!style="background: #efefef;"| RNA-Seq
 
|-
 
|-
−
!style="background: #efefef;"| Mapped Mutations
+
|style="white-space: nowrap;"| RNA-Seq Developmental Stages, unstranded (Baylor)
 
|-
 
|-
−
|style="white-space: nowrap;"| Transgenic insertions in stocks (Bloomington, Kyoto, Harvard Medical School)
+
|style="white-space: nowrap;"| Configure RNA-Seq view (log2 or linear scaling, tilted or vertical tracks, track spacing, track selection)
 
|-
 
|-
−
!style="background: #efefef;"| Gene Predictions
+
!style="background: #efefef;"| Other Reagents
 
|-
 
|-
−
|style="white-space: nowrap;"| Gene Predictions (NCBI Gnomon, CONTRAST, PhyloCSF)
+
|style="white-space: nowrap;"| BAC clones (Tiling)
 
|-
 
|-
−
!style="background: #efefef;"| Protein Similarity
+
!style="background: #efefef;"| Analysis
 
|-
 
|-
−
|style="white-space: nowrap;"| Similarity to Dmel proteins
+
|style="white-space: nowrap;"| Restriction Sites
 
|-
 
|-
−
|style="white-space: nowrap;"| Similarity to Other proteins
+
|}
 +
<br/>
 +
 
 +
= Data Tracks present in JBrowse but not in GBrowse =
 +
 
 +
{|cellpadding=3
 
|-
 
|-
−
!style="background: #efefef;"| Noncoding Features
+
!style="background: #efefef;"| Aligned Evidence
 
|-
 
|-
−
|style="white-space: nowrap;"| TFBS - mesoderm
+
|style="white-space: nowrap;"| proteomic peptides
 
|-
 
|-
−
|style="white-space: nowrap;"| Chromatin Domains
+
|style="white-space: nowrap;"| Polyadenylation sites
 
|-
 
|-
−
|style="white-space: nowrap;"| Histone Modifications
+
!style="background: #efefef;"| Noncoding Features
−
|-
 
−
!style="background: #efefef;"| Microarray Features
 
−
|-
 
−
|style="white-space: nowrap;"| Affymetrix
 
 
|-
 
|-
−
|style="white-space: nowrap;"| DGRC amplicons
+
|style="white-space: nowrap;"| Putative Brain Enhancers (Janelia GAL4 lines)
 
|-
 
|-
−
!style="background: #efefef;"| RNA-Seq
+
!style="background: #efefef;"| Genome Variation Data
 
|-
 
|-
−
|style="white-space: nowrap;"| RNA-Seq Cell lines
+
|style="white-space: nowrap;"| DGRP Variants
 
|-
 
|-
−
|style="white-space: nowrap;"| RNA-Seq Treatments/Conditions
+
!style="background: #efefef;"| sgRNA Reagents
 
|-
 
|-
−
|style="white-space: nowrap;"| RNA-Seq  by Tissue (digestive system, fat body/salivary glands, imaginal disc/carcass, CNS/adult head, gonads/male accessory glands, L3 CNS neuron and neuroblast)
+
|style="white-space: nowrap;"| Predicted sgRNA
 
|-
 
|-
−
|style="white-space: nowrap;"| Small RNA-Seq (tissues, developmental stages, cell lines)
+
|style="white-space: nowrap;"| Heidelberg CFD KO sgRNAs (conditional knockout)
 
|-
 
|-
−
|style="white-space: nowrap;"| Track identities available in color-coded table
+
|style="white-space: nowrap;"| TRiP-OE-flySAM.dCas9 sgRNAs (overexpression)
 
|-
 
|-
−
|style="white-space: nowrap;"| Configure RNA-Seq view (log2 or linear scaling, tilted or vertical tracks, track spacing, track selection)
+
|style="white-space: nowrap;"| Weizmann KO sgRNAs (knockout)
 
|-
 
|-
−
!style="background: #efefef;"| Aberrations
+
!style="background: #efefef;"| Expression Levels: RNA-Seq
 
|-
 
|-
−
|style="white-space: nowrap;"| Stock Center Aberrations
+
|style="white-space: nowrap;"| SRA aggregated RNA-Seq (Oliver lab)
 
|-
 
|-
−
|style="white-space: nowrap;"| Bloomington Deficiency Kit
+
|style="white-space: nowrap;"| FlyAtlas2 (various tissues)
 
|-
 
|-
−
!style="background: #efefef;"| Other Reagents
+
!style="background: #efefef;"| Expression Levels: Small RNA-Seq
 
|-
 
|-
−
|style="white-space: nowrap;"| BAC clones (Tiling, Pacman)
+
|style="white-space: nowrap;"| FlyAtlas2 (various tissues)
 
|-
 
|-
−
|style="white-space: nowrap;"| VDRC Vienna Tiles GAL4 lines
 
−
|-
 
−
|}
 
−
<br/>
 

Revision as of 19:16, 24 June 2020

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)
Retrieved from "https://wiki.flybase.org/mediawiki/index.php?title=FlyBase:Complete_list_of_GBrowse/JBrowse_Track_Differences&oldid=170762"