From 5b2d971f508bd05b293dfcc44773708818261e2c Mon Sep 17 00:00:00 2001 From: "Adam R. Rivers" Date: Tue, 19 Sep 2023 10:13:52 -0400 Subject: [PATCH] Update changelog for v0.4.1 --- CHANGELOG.md | 7 ++ coverage.xml | 176 +++++++++++++++++++++++++-------------------------- 2 files changed, 94 insertions(+), 89 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 2e6db07..537bd9e 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -1,3 +1,10 @@ +# v0.4.1 + +* Changed how Guidemaker handles DNA sequenses that are soft-masked with lower case letters. The new behavior unmasks all + sequences and finds guide candidates (and filters them for distance) against the entire sequence. It also fixes a a key value error in computing the doench efficency scores when mixed case sequences were used. Prevously, guides were only identified in regions where the PAM was all capital and edit distance was different if the case was different (a capitalized and lowercase guide were not considered the same). +* Dockerfiles now have more version information +* Github build actions were impoved + # v0.4.0 * changed the cli flag `--filter_by_locus` to `--filter_by_attribute` and added the flag `--attribute_key` so that keys other than the addribute key "locus_tag" can be filtered. diff --git a/coverage.xml b/coverage.xml index d263149..d56b612 100644 --- a/coverage.xml +++ b/coverage.xml @@ -1,12 +1,12 @@ - + /Users/rivers/Documents/guidemaker/guidemaker - + @@ -792,11 +792,11 @@ - - + - + + @@ -806,7 +806,7 @@ - + @@ -814,40 +814,41 @@ - + - - - - - - + + + + + + + - - + - - + + - - - - + + + + + @@ -856,138 +857,135 @@ - - - + - - + + - - + + - - + + + + - - + + - - - + + + - - - + + - + - + - - + + - - - - - + + + + + - + - - - - - - + + + + + + - - + + - + - + - - - - - - + + + + + - + + - - - - - - - - - - + + + + + + + + + - + + - + - - - - - - + + + + + + - - - - + + + + - -