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CHANGELOG
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CHANGELOG
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02.01.20 Fix KeyError in allele_merge
30.07.19 v1.0.1; update changelog and increment version for edits on this date (see #164)
30.07.19 Fix to display of liability scale gencov, h2 in rg results log (see #162)
30.07.19 Update munge to use pandas option for gzip output (see #142)
30.07.19 Avoid inconsistent failures from singular matrix in unit test (see #163)
10.08.18 Bug fix to quantile results for continuous annotations (commit 89c13a7, 16e6e80)
25.07.18 Add shebang to make_annot.py (see #127)
17.05.18 Update environment.yml with bioconda/pybedtools (see #118)
11.05.18 Add make_annot.py (commit ea188a7)
07.05.18 Improve error message from type-checking columns in munge (see #59)
07.05.18 Fix for bug in LD score calculation when subsetting individuals (see #115)
07.05.18 Move to conda environment versioning, ensure unit tests passing (see #113)
02.05.17 Update this changelog to record changes between 2.8.15 and 24.4.17 (see #81)
21.04.17 Fix README formatting issues from changes to Github markdown (commit a673b7c; see #80)
08.03.17 Update pandas version requirement, add --daner-n option (pull #75; commit 4da1199)
28.02.17 Fix ValueError in --h2 regarding Series labels from pandas 0.19 (pull #73; commit fa28cca)
27.02.17 Add --thin-annot and --ldsc-cts options (commit 94b5143)
12.02.17 Fix empty annotations outputting total LD scores; fix munge_sumstats outputting wrong
sign on Z scores when sumstats aren't floats; fix error from floats used as indices with
some versions of pandas (pull #69; commit c42e055)
09.11.16 Add support for continuous annotations in partitioned h2 (pull #62; commit f7c3316)
27.10.16 Fix possibly incorrect log of number of MAF exclusions from munge_sumstats (pull #44;
commit d853e57); fix typos in LD hub information (commit 285eb69, 091c1fc)
24.10.16 Add LD Hub information to readme (pull #60; bb0bb7d)
07.06.16 Update Anaconda recommendation for Broad users (commit 2a4af67)
05.04.16 Fix multiple crash errors from pandas 0.17 (pull #49; commit 23a94fc)
29.02.16 Add --print-cov to print covariance matrix of regression coefficients (commit d382392)
01.02.16 Move precomputed LD scores download location to
data.broadinstitute.org/alkesgroup/LDSCORE (commit 2bedf46)
23.12.15 Remove nonfunctional --all flag (commit f8e8342)
06.10.15 Clarify error message if --rg encounters mismatched alleles (commit 78874c7)
05.10.15 Fix failing nosetests from pandas updates (commit a4a29af)
03.08.15 Add mention of heritability tutorial to readme (commit 34394e8)
16.07.15 Update Anaconda recommendation for Broad users (commit af14f3b)
09.07.15 Fix non-ascii character in regressions.py (commit 0401c28)
07.07.15 Fix typo in log for ratio estimates < 0 (commit c72a219)
02.07.15 Modify rg out of bounds error message when --no-intercept (or --intercept-h2 and
--intercept-gencov) flags are set
25.05.15 Fix ValueError in partitioned h2 (possibly caused by changes in pandas in 0.16.1?)
18.04.15 Fix bug where --no-intercept + partitioned LD Scores gave wrong answers.
18.04.15 Fix bug in munge_sumstats.py where using --a1-inc with a file with a signed summary
statistic would when printing summary statistic metadata.
13.03.15 Fix bug where munge_sumstats.py did not correcly report number of variants with bad
alleles removed
03.03.15 Raise sensible exception with pandas < 0.15
02.03.15 Fix bug where munge sumstats said many SNPs removed for invalid p-values with
--merge-alleles
20.02.15 Fix --a1-inc flag in munge_sumstats.py
17.02.15 Fix bug where ~ was not expanded in comma-separated lists of files
12.02.15 v1.0.0 released