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NEWS
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CHANGES IN VERSION 0.99.23
--------------------------
NEW FEATURES
o Added the function compute_mean() which computes a mean BigWig file
given a set of BigWig files, the corresponding chromosome information
and area under coverage (AUC) for the BigWigs (can be calculated if
missing).
CHANGES IN VERSION 0.99.19
--------------------------
SIGNIFICANT USER VISIBLE CHANGES
o coverage_bwtool() now has a new argument: 'stranded_sumsdir'. By default
this will append the strand to 'sumsdir' to avoid overwriting files
from different strands.
CHANGES IN VERSION 0.99.18
--------------------------
SIGNIFICANT USER VISIBLE CHANGES
o Merged Ben Langmead's pull request that adds the 'overwrite' parameter.
https://github.com/LieberInstitute/recount.bwtool/pull/2
CHANGES IN VERSION 0.99.17
--------------------------
NEW FEATURES
o Added the function coverage_bwtool() for computing coverage matrices
using bwtool for a user-specified list of bigWig files and a
user-specified phenotype table. It's heavily based on
coverage_matrix_bwtool.
CHANGES IN VERSION 0.99.16
--------------------------
SIGNIFICANT USER VISIBLE CHANGES
o Allows accessing GTEx data (bigWig files) on SciServer since they exist
there now.
CHANGES IN VERSION 0.99.13
--------------------------
SIGNIFICANT USER VISIBLE CHANGES
o Now uses recount 1.0.17 (1.1.24 in devel) since recount_url has the list
of GTEx bigwig files.
CHANGES IN VERSION 0.99.8
-------------------------
SIGNIFICANT USER VISIBLE CHANGES
o coverage_matrix_bwtool() doesn't run bwtool if the resulting tsv file
already exists and has the same number of lines as expected.
CHANGES IN VERSION 0.99.2
-------------------------
NEW FEATURES
o Added scripts for running coverage_matrix_bwtool() on all projects we have
available at JHPCE. See the updated manual page of
coverage_matrix_bwtool().
CHANGES IN VERSION 0.99.1
-------------------------
SIGNIFICANT USER VISIBLE CHANGES
o coverage_matrix_bwtool() now allows has an argument called
`url_table` which allows specifying a custom table with paths to
files.
CHANGES IN VERSION 0.99.0
-------------------------
NEW FEATURES
o Created the coverage_matrix_bwtool() function.