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- Fixed issues where some stats figures (mainly box and violin plots) didn't update correctly when sample values were changes
- Fixed issue with some temp traits if user wasn't logged in
- Fixed issue where traits couldn't be added to a collection from the correlation results page
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or add them to a collection from the corr matrix page,
but you can click them and access them from the trait page. I'll add the option to access them from the corr matrix page as well,
but adding the option to change their names might be trickier since they're currently used as their Redis keys. I need some better
way of passing the Redis key around so it can be stored in collections, but this is tricky without changing the structure in ElasticSearch
- Fixed the way temp traits work so you can use them with various functions, like mapping, correlations, network graph, etc
- Fixed some appearance issue where the network graph options were too wide if a trait name was too long
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stores the output file
Added option to search for terms in quotes, searching for all the contents within the quotes
Added link to R/qtl documentation when user is in the R/qtl mapping tab
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that good. Now it's just a simple header element.
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traits to a collection
Fixed issue with displaying cofactor selection tables for scatterplot
Removed limit on text length for collection trait fields (dataset name and description)
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Made the outlier notification appear for all mapping methods
Removed some misleading text saying "Block samples" from the Transform and Filter Data section
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matched colors between box and violin plots
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new line before submitting
Also removed some pointless wrapper from dataset_select_menu_orig.js that was left over from being converted from coffeescript (need to do this with other files also)
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Set default permutations for R/qtl to 200
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Added title to basic stats table and made link for Interquartile Range more obvious
Removed pointless "Delete Collection" button from correlation results page
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wrong combinations of options
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Fixed stats table to calculate Range and Interquartile Range correctly, and only show Range (fold) for appropriate traits
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- Added text indicating which transformation has been applied
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separate one like I did for correlation previously
Fixed some wrong text on heatmap page
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Fixed sorting issues on correlation page
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Added a better error page for mapping if no results are returned (which generally implied an error occurred during the running of GEMMA)
Fixed some issues with tables, like them sorting incorrectly or showing the wrong number of digits
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Fixed issue where cofactor selection screens were broken
Changed case attributes to be applied across groups, though need to discuss this with Rob since it shouldn't always be done this way
Added new inversion transformation
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Updated instructions and SERVER_PORT for single flask server
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instead of integers)
Fixed error that caused N to show up as "null" in the trait sample table instead of "x"
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Also fixed such that sorting works with user-updated values
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Gn testing: updates to scripts, removed coffee scripts and removed pylmm code
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Fixed some issues with sorting in various tables
Changed header appearance for some pages
Fixed bug where basic stats table would sometimes be duplicated or show up with empty fields
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other functions
Added the collection page features (correlation matrix, network graph, third party link-outs, etc) to the search result and correlation result pages
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when loading and more easily control cell contents
Added typeahead to snp_browser (still need to tell it only to use it for rat, though)
Added WebGestalt link to collection page (still need to add it and BNW to other trait list pages)
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results from Chromosome 1
Fixed issue where traits couldn't be added to a collection from the global search results
Made some improvements to the gene global search table
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HTML table, and adding loading text
Made some changes to make trait page SNPs link point to GN2 SNP Browser, as well as make other links open in new tabs/windows
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Changed Variant Browser to display gene name under "Domain" when the user searches a gene term and rows are mislabeled "Intergenic"
Fixed Chr option to display correct chromosomes for different species
Fixed order for correlation drop-down on trait page
Fixed some appearance issues with the mapping results table
Improved appearance of correlation scatterplot page
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Added option to submit traits in collection to BNW
Fixed issue with "x" values for user-submitted traits
Fixed issue where post-publications descriptions were wrongly appearing in global search results
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Updated style for a variety of tables
Moved transform/blocking tools for trait sample table into its own tab
Added some new customization options to network graph
Started work on implementing third party link-outs
Updated drop-down generation script to order datasets according to CreateTime
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Put transform/blocking tools into their own tab (still need to change formatting of tab's contents)
Improved appearance of search result page table (still need to change a few other tables)
Fixed issue that caused parent/f1 strains to not be blocked correctly when using "block by index" tool
Basic Stats figures now load when the user clicks the tab, to improve initial page load time
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inconsistent error
Added change to change maf depending upon number of sample values
Committing in-process changes to how sample table is built on trait page (to make it look better and more compact)
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the same group
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