Create a GSuite from an integrated catalog of genomic datasets

Create a remote GSuite from a public repository

Create a GSuite from datasets in your history

Create a GSuite from a single track based on a single column/attribute

Create a GSuite from an archive (Zip/tar) in history

Create a GSuite from the HyperBrowser repository

Convert GSuite tracks from remote to primary (Download tracks)

Preprocess a GSuite for analysis

Convert GSuite tracks from preprocessed to primary

Select a subset of tracks from a GSuite

Select a subset of metadata columns in a GSuite

Concatenate two or more GSuites

Edit a metadata column in a GSuite

Generate a union track from all the tracks in a GSuite

Intersect preprocessed tracks in GSuite with a single track

Modify primary tracks referred to in a GSuite

Export primary tracks from a GSuite to your history

Summary of metadata attributes for GSuite

Summary statistics per track in a GSuite

Similarity and uniqueness of tracks in GSuite

Tendency of track elements to clump together along the genome (Ripleys K)

Calculate all summary statistics for tracks in GSuite (all of the above)

Compute a basic measure for each track in a GSuite

Determine representative and atypical tracks in a GSuite

Determine GSuite tracks coinciding with a target track

Determine coinciding track combinations from two GSuites

Determine GSuite tracks coinciding with another GSuite

Determine regions where GSuite tracks are enriched

Determine regions where GSuite tracks co-occur more strongly

Color-code segments from a query track based on overlap with reference tracks in a GSuite

Generate a heatmap based on overlap of segments from a query track with reference tracks in a GSuite

Generate a Venn diagram of overlap between tracks in a GSuite

Scan targets of a transcription factor

Scan transcription factors of a genomic region

Scan for TF binding disruptions due to point mutations

Match a suite of TFs with PWMs

Show GSuite specification

ClusTrack: Cluster tracks in a GSuite based on genome level similarity

Plot metadata values of a GSuite file

Analyze genomic tracks

Visualize track elements relative to anchor regions

Create high-resolution map of track distribution along genome

Create high-resolution map of multiple track distributions along genome

Visualize relation between two tracks across genomic regions

Aggregation plot of track elements relative to anchor regions

Analyze spatial colocalization of track elements (in 3D)

ClusTrack: Cluster tracks based on genome level similarity

Analyze k-mer occurrences

Inspect k-mer frequency variation

Execute batch commands

Retrieve batch command IDs of history tracks

Concatenate results of multiple history items

Extract track from HyperBrowser repository

Expand or contract points/segments

Expand BED segments to cover whole genome

Combine two BED files into single case-control track

Merge multiple BED files into single categorical track

Split BED segments into subsegments of equal size

Create smoothing or density track

Extract segments where value is greater/less than threshold

Generate bp-level track from DNA sequence

Generate bp-level track of distance to nearest segment

Generate intensity track for confounder handling

Generate k-mer occurrence track

Generate segment track from gene IDs

Create GTrack file from unstructured tabular data

Convert between GTrack/BED/WIG/bedGraph/GFF/FASTA files

Show GTrack specification

Create GTrack file from unstructured tabular data

Expand GTrack headers

Validate GTrack file

Standardize GTrack file

Sort GTrack file

Complement GTrack columns

Convert between GTrack/BED/WIG/bedGraph/GFF/FASTA files

View clustered heatmap of the 1000 RNAs most associated with bone mineral densities (BMD)

View clustered heatmap of the 1000 RNAs least associated with bone mineral densities (BMD)

View regulomes (list)

View regulomes (table)

Select TFs for regulome

Select diseases for regulome

Create regulome from history

Create google map

Set google map image borders

Simulate p-values using the MCFDR scheme

MCFDR exploration tool

Tools used in article: Monte Carlo null models for genomic data

Find TF gene targets

Find TFs regulating gene set

Find cooperative TFs

Extract IDs of genes intersecting with track elements

Variant melting profiles

Edit genome info

Upload genome

Install uploaded genome

Remove genome

Edit track info

Integrate track from history

Preprocess tracks

Rename track

Touch standardized track

Standardize track files

Integrate categorical track from history

Debug statistic

Debug analysis list

Show tail of log file

Fetch full disk path for data behind history element

List subtrack names

Convert primary GSuite with Galaxy URI to GSuite with local paths

Converts a preprocessed GSuite into a primary GSuite with local file paths (not secure)

Generate HB ProTo tool

Explore HB ProTo tools

Hide HB ProTo tool modules from 'Explore HB ProTo tools'

Debug import of HB ProTo tools

Install HB ProTo tool

Upload File from your computer

UCSC Main table browser

UCSC Test table browser

UCSC Archaea table browser

EBI SRA ENA SRA

Get Microbial Data

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

Extract features from GFF data

Filter GFF data by attribute using simple expressions

Filter GFF data by feature count using simple expressions

Filter GTF data by attribute values_list

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

SFF converter

GTF-to-BEDGraph converter

Wig/BedGraph-to-bigWig converter

BED-to-bigBed converter

Gene BED To Exon/Intron/Codon BED expander

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