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GSuite HyperBrowser tools
From an external source
From history
From HyperBrowser repository
Convert GSuite tracks (remote/ primary/ preprocessed )
Modify GSuites
Modify datasets referred to in a GSuite
Export GSuite datasets
Metadata overview
Track overview
Similarity-based analysis of tracks in GSuites
Distribution of suite data along the genome
HyperBrowser analysis
Raw visualization
Derived visualization
HyperBrowser track processing
Article/domain-specific tools
HyperBrowser internal tools
Galaxy ProTo
Hide HB ProTo tool modules
from 'Explore HB ProTo tools'
Standard Galaxy tools
Upload File
from your computer
UCSC Main
table browser
UCSC Test
table browser
UCSC Archaea
table browser
EBI SRA
ENA SRA
BioMart
Central server
CBI Rice Mart
rice mart
GrameneMart
Central server
modENCODE fly
server
Flymine
server
Flymine test
server
modENCODE modMine
server
MouseMine
server
Ratmine
server
YeastMine
server
metabolicMine
server
modENCODE worm
server
WormBase
server
Wormbase
test server
ZebrafishMine
server
EuPathDB
server
HbVar
Human Hemoglobin Variants and Thalassemias
GenomeSpace import
from file browser
Convert genome coordinates
between assemblies and genomes
Compute
an expression on every row
Add column
to an existing dataset
Concatenate datasets
tail-to-head
Cut
columns from a table
Merge Columns
together
Convert
delimiters to TAB
Create single interval
as a new dataset
Change Case
of selected columns
Paste
two files side by side
Remove beginning
of a file
Select random lines
from a file
Select first
lines from a dataset
Select last
lines from a dataset
Trim
leading or trailing characters
Line/Word/Character count
of a dataset
Secure Hash / Message Digest
on a dataset
Filter
data on any column using simple expressions
Sort
data in ascending or descending order
Select
lines that match an expression
GFF
Extract features
from GFF data
Filter GFF data by attribute
using simple expressions
Filter GFF data by feature count
using simple expressions
Join two Datasets
side by side on a specified field
Compare two Datasets
to find common or distinct rows
Group
data by a column and perform aggregate operation on other columns.
AXT to concatenated FASTA
Converts an AXT formatted file to a concatenated FASTA alignment
AXT to FASTA
Converts an AXT formatted file to FASTA format
AXT to LAV
Converts an AXT formatted file to LAV format
BED-to-GFF
converter
GFF-to-BED
converter
LAV to BED
Converts a LAV formatted file to BED format
MAF to BED
Converts a MAF formatted file to the BED format
MAF to Interval
Converts a MAF formatted file to the Interval format
MAF to FASTA
Converts a MAF formatted file to FASTA format
Wiggle-to-Interval
converter
GTF-to-BEDGraph
converter
Wig/BedGraph-to-bigWig
converter
BED-to-bigBed
converter
Extract Genomic DNA
using coordinates from assembled/unassembled genomes
Extract Pairwise MAF blocks
given a set of genomic intervals
Extract MAF blocks
given a set of genomic intervals
Split MAF blocks
by Species
Stitch MAF blocks
given a set of genomic intervals
Stitch Gene blocks
given a set of coding exon intervals
MAF Coverage Stats
Alignment coverage information
Join MAF blocks
by Species
Filter MAF blocks
by Species
Filter MAF blocks
by Size
Extract MAF by block number
given a set of block numbers and a MAF file
Reverse Complement
a MAF file
Filter MAF
by specified attributes
Summary Statistics
for any numerical column
Count
occurrences of each record
Bar chart
for multiple columns
Boxplot
of quality statistics
VCF to MAF Custom Track
for display at UCSC
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Workflows
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