jbloomlab/neutcurve issues and pull requests

#62 - update citation to JVI Loes 2024 paper

Pull Request - State: closed - Opened by jbloom 2 months ago

#61 - update link to new Bloom lab webpage

Pull Request - State: closed - Opened by jbloom 3 months ago

#60 - option to plot lines just within measured point boundaries

Pull Request - State: closed - Opened by jbloom 8 months ago

#59 - zero fractional infectivity plateaus fit with fixtop will draw curves outside bounds

Issue - State: closed - Opened by ckikawa 8 months ago

#58 - fix `CurveFit.fitParams` in edge case w no curves

Pull Request - State: closed - Opened by jbloom 8 months ago

#57 - improvements to assessing curve fit (`r2` and `rmsd`)

Pull Request - State: closed - Opened by jbloom 8 months ago

#56 - add functionality to constrain parameters to a range

Pull Request - State: closed - Opened by jbloom 8 months ago

#55 - R2 values of -inf when no neutralization is observed (i.e. a flat line at 1)

Issue - State: closed - Opened by anloes 8 months ago - 1 comment

#54 - add citation to Loes et al 2024

Pull Request - State: closed - Opened by jbloom 9 months ago

#53 - Add mechanism to constrain fitting parameters

Issue - State: closed - Opened by anloes 11 months ago - 4 comments

#52 - `CurveFits.plotReplicates` no longer fails if too many replicates

Pull Request - State: closed - Opened by jbloom 11 months ago

#51 - fix internal bug on fit re-tries in `HillCurve`

Pull Request - State: closed - Opened by jbloom 11 months ago

#50 - report bounds on midpoint estimates

Pull Request - State: closed - Opened by jbloom 11 months ago

#49 - calculate coefficient of determination to quantify how well curves fit data

Pull Request - State: closed - Opened by jbloom 11 months ago

#48 - remove unneeded `.flake8` file (linting now done w `ruff`)

Pull Request - State: closed - Opened by jbloom 11 months ago

#47 - add `allow_reps_unequal_conc` to `CurveFits`

Pull Request - State: closed - Opened by jbloom 11 months ago

#46 - Improve exception handling

Pull Request - State: closed - Opened by jbloom 11 months ago

#45 - improve fitting by fitting fixed slope first

Pull Request - State: closed - Opened by jbloom 11 months ago

#44 - Neutcurve fits a flat line to data

Issue - State: closed - Opened by anloes 11 months ago

#43 - Neutcurve occassionally fits curves that are not consistent with the data

Issue - State: closed - Opened by anloes 11 months ago - 4 comments

#42 - Fix bug in `CurveFits.combineCurveFits` when using only one fit

Pull Request - State: closed - Opened by jbloom 12 months ago

#41 - add params to `CurveFits.combineCurveFits`

Pull Request - State: closed - Opened by jbloom 12 months ago

#40 - add `CurveFits.combineCurveFits` method

Pull Request - State: closed - Opened by jbloom 12 months ago

#39 - enable `plotReplicates` to handle many replicates

Pull Request - State: closed - Opened by jbloom 12 months ago

#38 - Added `no_average` option to `CurveFits.fitParams`

Pull Request - State: closed - Opened by jbloom 12 months ago

#37 - Fix `fitParams` when only some concentrations have replicates

Pull Request - State: closed - Opened by jbloom 12 months ago

#36 - update package

Pull Request - State: closed - Opened by jbloom 12 months ago

#35 - Additional data groupings in neutcurves

Issue - State: closed - Opened by Bernadetadad over 2 years ago - 1 comment

#34 - what does this mean? consider `infectivity_or_neutralized="neutralized"

Issue - State: closed - Opened by xguse almost 3 years ago - 1 comment

#33 - code and example on IC50 error estimates

Pull Request - State: closed - Opened by jbloom over 3 years ago

#32 - Get error estimate for curve-fitting

Issue - State: closed - Opened by ajgreaney over 3 years ago - 2 comments

#31 - No double argument

Pull Request - State: closed - Opened by krdav over 3 years ago

#30 - only import `dmslogo` as needed

Pull Request - State: closed - Opened by jbloom over 3 years ago

#29 - install issue

Issue - State: closed - Opened by khdcrawford over 3 years ago - 5 comments

#28 - examples on how to customize xticks

Pull Request - State: closed - Opened by jbloom over 3 years ago

#27 - Dose-response curve plot

Issue - State: closed - Opened by zoehlerbz over 3 years ago - 1 comment

#26 - Pip install of neutcurve doesn't work on python 3.8

Issue - State: closed - Opened by AoifeHughes over 3 years ago - 4 comments

#25 - Unable to import neutcurve

Issue - State: closed - Opened by ratnadeep1982 almost 4 years ago - 10 comments

#24 - better error message if virus or serum is NaN

Pull Request - State: closed - Opened by jbloom about 4 years ago

#23 - `CurveFits` works if viruses or sera categorica

Pull Request - State: closed - Opened by jbloom about 4 years ago

#22 - added `plotViruses` to plot sera against each virus

Pull Request - State: closed - Opened by jbloom about 4 years ago

#21 - can not import neutcurve

Issue - State: closed - Opened by zxqedu about 4 years ago - 7 comments

#20 - fix bug in plotting ylabel

Pull Request - State: closed - Opened by jbloom over 4 years ago

#19 - version 0.4.1: better init parameters when `infectivity_or_neutralized="neutralized"`

Pull Request - State: closed - Opened by jbloom over 4 years ago

#18 - version 0.4.0: add `infectivity_or_neutralized` fitting option

Pull Request - State: closed - Opened by jbloom over 4 years ago

#17 - fix bug in lower bound IC50s (v 0.3.1)

Pull Request - State: closed - Opened by jbloom over 4 years ago