Workspace contents like files, analyses, reports can now be sorted in workspaces based on name, created date, last modified, author, and type.
15,000 Microarray and WES (Whole Exome Sequencing) datasets from PPMI have been curated and added to Polly.
Dataset Overview (containing Title, Publication, Abstract, Tags for the Data, sample information as summary plots and table, processed data as a table) for every dataset can be viewed using the “View Details” option beside datasets in OmixAtlases.
The Datasets (gct, h5ad, vcf) files can be downloaded from the Options Menu in the Card view or from the View Details Page.
Request for Dataset option is available at multiple places within the OmixAtlases.
Resolved a bug in El-MAVEN instance termination.
Curation information of 45,000 datasets from gnomAD and DepMap has been updated.
In addition to Liver OmixAtlas, polly now has GDC, GEO, cBioPortal, PharmacoDB, LINCS and Metabolomics OmixAtlases.
Added 17500 datasets on Polly
Genotype, age and gender annotation were added to 3,900,000 GEO samples
New compute machines Mi5xlarge (32 vCPU, 250GB RAM), Mi6xlarge (64 vCPU, 500GB RAM), Mi7xlarge (64 vCPU, 970GB RAM), GPUsmall (1 GPU, 8 vCPU, 60GB RAM) and GPUmedium (4 GPU, 32 vCPU, 240GB RAM) were added to EL-MAVEN.
Introduced Polly Files (beta version), a desktop application for transferring files between computer and Polly Workspaces.
Resolved a bug that caused an error in SQL query on “’” expansion.
gnomAD was enriched with 96,000 new datasets of WES and WGS type.
Fixed table view bugs and enhanced UI on OmixAtlas.
New datasets totalling 48,000 were added to Immport, HPA, CPTAC and GTex.
Auto-curated tags totalling 770,000 were added to polly datasets.
A bug affecting folder deletion was fixed.
Introduced Polly Python Library facilitating powerful search capabilities across dataset, sample, and feature level metadata on any computational environment through code.
Introduced “View Only Access” on Polly Workspaces – an enterprise grade permission giving more control to admins.
Enabled Voila Dashboards within Polly Notebooks.
Introduced an application resource monitor on EL-Maven, enabling users to monitor the progress of a job and make decisions about requirement of a bigger machine.
Over 155,000 datasets were added to LINCS OmixAtlas on Polly.
Liver OmixAltas released.
June 18th, 2021
Added 12,200 new curated transcriptomics and single cell datasets to various Data Lake.
June 4th, 2021
Made Dual Mode Visualizatopn application and Untargeted Pipeline Application lighter for heavy datasets to avoid memory leakage.
Added 3.350 new curated transcriptomics and single cell datasets to various Data Lake.
Resolved issue in Lipidomics, Dual Mode and Polly El-MAVEN Applications.
May 21st, 2021
Introduced Google Slide Intergration with Polly Notebooks.
Added Reporting feature using Markdown in Dual Mode Visulaization Application.
Added 23.350 new curated transcriptomics and single cell datasets to various Data Lake.
Added Scree Plot under Quality Check in Dual Mode Visualization Application.
Resolved forgot password issue.
May 7th, 2021
El-MAVEN latest beta version is now available on Polly.
Added 25.120 new curated transcriptomics and single cell datasets to various Data Lake.
Added two-way ANOVA capability in Dual Mode visualization Application along with combining multiple conditions or cohorts while performing differential expression.
April 23rd, 2021
Introduced an Admin Dashboard to provide account administrators the convenience to manage their accounts.
Added 10,120 new curated transcriptomics and single cell datasets to various Data Lake.
HTML as a data file can now be opened through Workspace itself.
Resolved an issue to make Dropbox work seamlessly with Workspaces.
April 9th, 2021
Created Shiny and Studio applicationS for feature level search of GEO Datasets.
Added 11,177 new curated transcriptomics datasets to TCGA Data Lake.
PDF as a data file can now be opened through Workspace itself.
Resolved an issue to make Google Drive work seamlessly with Workspaces.
March 26th, 2021
TEDDY (The Environmental Determinants of Diabetes in the Young) and DEPMAP (Dependency Map) Data Lakes have been added on Polly.
Introduced option to directly export data to the workspace from a Studio Preset.
Added 37,177 new curated datasets corresponding to various omics to different Data Lakes.
Updated Polly Login User Interface.
Added additional filters to TEDDY Data Lake.
Resolved issue with app hosting infrastructure to increase stability of apps for better user experience.
March 12th, 2021
Introduced Docker building feature on Polly CLI which enable users to build dockers, check their build status and logs and push dockers to Polly.
Added 11,470 new curated transcriptomics and single cell datasets to different Data Lakes.
Better accessibility to datasets within OmixWiki with accessibility to metadata filtering options.
February 26th, 2021
Introduced the functionality that enables the users to host their own application on Polly by using Polly CLI.
Enabled feature level querying for GEO Data Lake.
Added Genomics docker for variant calling and annotation.
Added a new notebook environment for Genomics Variant Analysis.
Enabled partial string search for dataset id in the search bar.
Added 20,096 new curated transcriptomics and single cell datasets to different Data Lakes.
February 12th, 2021
Introduced the status page for real time updates on Polly’s status, downtime, incidents, and maintenance.
Added auto-run feature for selected Studio Presets.
Enabled component updating and versioning by component creator.
Added 11,580 new curated transcriptomics datasets to GEO and LINCS Data Lakes.
Updated the UI of visualization dashboard of Data Studio for better visibility.
Updated all notebook dockers with the latest version of discoverpy (0.0.10).
Introduced the option to make dockers on Polly public by adding public docker domain.
Welcome screen now displays the username.
Decreased launch time for applications and notebooks through horizontal pod scaling and buffering.
Fixed landing on Discover after logging in error.
Fixed priority assignment of automated jobs error.
Fixed renaming files after upload error.
Fixed 404 error in Metabolomics Data Lake.
Integrated documentation to every application.
September 25th, 2020
Introduced Labeled LC-MS Analysis preset for natural abundance correction and visualization for single or dual labeled LC-MS data combined with an interactive, customizable and shareable reporting dashboard.
Changed the optimized color palette in IntOmix from a red-yellow-green scale to a more intuitive red-green scale. All upregulated metabolites or genes are represented by a shade of red and downregulated metabolites or genes as a shade of green.
Changed the non-optimized color palette in IntOmix from a pink-purple scale to a red-green scale to remove ambiguity.
April 24th, 2020
COVID-19 (Transcriptional datasets for SARS viruses, viral infections, and therapeutics for novel coronavirus) repository has been added in Data Lake.