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
read_counts()would report tiny fractions for such large numbers. This bug was reported by Christopher Wilks.
project_homes()reads in a text file from
organism/homes_index which enables support for custom URLs such as http://snaptron.cs.jhu.edu/data/temp/recount3test.
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_samples(). This bug was reported by Christopher Wilks.
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.
locate_url() for GTEx & TCGA BigWig files.
NEWS.mdfile to track changes to the package.
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