NEWS.md

In recount3: Explore and download data from the recount3 project

recount3 1.0.7

BUG FIXES

• read_counts() now reads the gene/exon counts for every sample as numeric instead of integer in order to support count values that exceed the 32bit integer threshold (such as 2447935369). Previously, read_counts() would report tiny fractions for such large numbers. This bug was reported by Christopher Wilks.

recount3 1.0.6

BUG FIXES

• Now project_homes() reads in a text file from recount3_url/organism/homes_index which enables support for custom URLs such as http://snaptron.cs.jhu.edu/data/temp/recount3test.

recount3 1.0.4

BUG FIXES

• Fixed project_homes(), available_projects() and available_samples() to support using non-standard recount3_urls where the user knows that are the project_homes() for their organism of choice. This fix enables users to create their own custom recount3-like webservers and access their data using the functions in this package. This fix introduces the argument available_homes to both available_projects() and available_samples(). This bug was reported by Christopher Wilks.

recount3 1.0.3

NEW FEATURES

• Added expand_sra_attributes() that was contributed by Andrew E Jaffe. This function expands the SRA attributes stored in a given SRA study, which makes it easier to use that data. However, it makes it harder to merge studies and thus should be used with caution.

recount3 1.0.1

BUG FIXES

Fixed locate_url() for GTEx & TCGA BigWig files.

recount3 0.99.0

NEW FEATURES

• Added a NEWS.md file to track changes to the package.
• Documentation website is now available at http://LieberInstitute.github.io/recount3/. It gets updated with every commit on the master branch (bioc-devel) using GitHub Actions and pkgdown.

recount3 documentation built on Feb. 13, 2021, 2 a.m.