Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / mrc-ide/EpiEstim issues and pull requests

#166 - make EpiEstim compatible with incidence2

Issue - State: open - Opened by annecori about 2 months ago

#164 - fix bug in process_I and add test

Pull Request - State: closed - Opened by annecori 5 months ago

#163 - Plots

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

#162 - Matching vector lengths to original timeseries

Issue - State: open - Opened by adamkucharski 10 months ago - 1 comment

#161 - R0 correction

Pull Request - State: open - Opened by abriz97 11 months ago

#160 - Recon opt

Pull Request - State: closed - Opened by rebeccanash about 1 year ago

#159 - Add lint-changed-files workflow

Pull Request - State: closed - Opened by Bisaloo about 1 year ago

#158 - Set up static code analysis with lintr and fix lints

Pull Request - State: closed - Opened by Bisaloo about 1 year ago

#157 - `method` argument not used in `make_config()`

Issue - State: open - Opened by davidchampredon over 1 year ago

#156 - Weekly

Pull Request - State: closed - Opened by rebeccanash over 1 year ago

#155 - Create a pkgdown website for EpiEstim

Issue - State: open - Opened by thibautjombart over 1 year ago
Labels: enhancement

#154 - Document use of incidence2 as inputs

Issue - State: open - Opened by thibautjombart over 1 year ago
Labels: enhancement

#153 - Use incidence2 inputs

Issue - State: open - Opened by thibautjombart over 1 year ago
Labels: enhancement

#152 - Turn estimate_R into a generic with S3 methods

Issue - State: open - Opened by thibautjombart over 1 year ago
Labels: enhancement

#150 - Return posterior draws for R in estimate_R

Issue - State: open - Opened by nbanho almost 2 years ago

#149 - vignettes are not automatically visible

Issue - State: open - Opened by annecori about 2 years ago

#148 - plots misaligned

Issue - State: closed - Opened by annecori about 2 years ago

#147 - TODO for weekly work

Issue - State: open - Opened by annecori about 2 years ago

#146 - Clean vignettes and docstrings

Pull Request - State: closed - Opened by pitmonticone about 2 years ago - 1 comment

#145 - remove browser()

Pull Request - State: closed - Opened by rebeccanash over 2 years ago

#144 - fix bug

Pull Request - State: closed - Opened by annecori over 2 years ago

#143 - Updated README and vignettes

Pull Request - State: closed - Opened by rebeccanash over 2 years ago

#142 - Struggling to interpret discr_si

Issue - State: open - Opened by tim-laurence-dhsc over 2 years ago - 2 comments

#141 - `estimate_R()` error when dates are not consecutive

Issue - State: open - Opened by arnold-c over 2 years ago

#140 - Edits for paper

Pull Request - State: closed - Opened by sangeetabhatia03 over 2 years ago

#139 - MV-EpiEstim into EpiEstim development version

Pull Request - State: closed - Opened by sangeetabhatia03 over 2 years ago

#138 - Optional re-ordering and vignette

Pull Request - State: closed - Opened by j-wardle over 2 years ago - 1 comment

#137 - When reordering incidence, also change the priors in estimate_advantage

Issue - State: open - Opened by sangeetabhatia03 over 2 years ago
Labels: priority

#136 - more helpful error message if incidence format and structure issues

Issue - State: open - Opened by BGalindo-Prieto over 2 years ago - 1 comment

#135 - Sensible defaults for epsilon

Pull Request - State: closed - Opened by sangeetabhatia03 over 2 years ago

#134 - Catch non-integer inputs

Issue - State: open - Opened by jbracher over 2 years ago

#133 - Improving seealso in ?estimate_R

Pull Request - State: closed - Opened by thibautjombart almost 3 years ago
Labels: enhancement

#131 - Run and store result of convergence check

Pull Request - State: closed - Opened by j-wardle almost 3 years ago

#130 - Check for zero incidence in estimate_joint

Issue - State: open - Opened by sangeetabhatia03 almost 3 years ago

#129 - pre-compute quantities to save time

Pull Request - State: closed - Opened by annecori almost 3 years ago - 1 comment

#126 - Fix default priors for epsilon and R

Pull Request - State: closed - Opened by sangeetabhatia03 about 3 years ago

#125 - Fix issues 122 and 123

Pull Request - State: closed - Opened by sangeetabhatia03 about 3 years ago - 1 comment

#124 - improvement for mutivariants

Issue - State: open - Opened by pnouvellet about 3 years ago

#123 - For more than 3 variants, rate update is incorrect

Issue - State: open - Opened by sangeetabhatia03 about 3 years ago - 1 comment

#122 - Initial value for epsilon is really high in estimate_joint

Issue - State: open - Opened by sangeetabhatia03 about 3 years ago - 1 comment

#121 - trying with single location

Issue - State: open - Opened by pnouvellet about 3 years ago

#120 - estimate_join fails with uninformative error

Issue - State: open - Opened by sangeetabhatia03 about 3 years ago - 1 comment

#119 - Estimate_joint fails when number of locations = 1

Issue - State: open - Opened by rebeccanash about 3 years ago - 1 comment

#117 - Handle imported cases in multi-variant estimation

Issue - State: open - Opened by sangeetabhatia03 about 3 years ago

#116 - README.md with clearer citation info including DOI

Pull Request - State: closed - Opened by t-pollington about 3 years ago

#115 - estimate_joint should return similar output to estimate_R

Issue - State: open - Opened by sangeetabhatia03 about 3 years ago - 1 comment

#114 - estimate_joint fails when number of locations is 1

Issue - State: open - Opened by sangeetabhatia03 about 3 years ago

#113 - Change si to si[-1] for projections

Pull Request - State: closed - Opened by rebeccanash about 3 years ago

#112 - DOI

Issue - State: closed - Opened by t-pollington about 3 years ago - 2 comments

#111 - Improve doc

Pull Request - State: closed - Opened by annecori about 3 years ago

#110 - Add vignette

Pull Request - State: closed - Opened by annecori about 3 years ago

#109 - Update README.md

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

#108 - CI: Add a weekly scheduled run

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

#107 - estimate of serial interval

Issue - State: open - Opened by Suzzan-1991 over 3 years ago

#106 - vdiffr tests broken

Issue - State: open - Opened by richfitz over 3 years ago - 4 comments

#105 - Use vdiffr optionally

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

#104 - Changing the title of estimate_R plot

Issue - State: open - Opened by ramashka328 over 3 years ago

#102 - Apply EpiEstim to real daily covid data

Issue - State: open - Opened by supermarco99 almost 4 years ago

#101 - Strange results on simulated SIR data

Issue - State: closed - Opened by gcgibson about 4 years ago - 1 comment

#100 - Tag release of 2.2-3

Issue - State: closed - Opened by zkamvar about 4 years ago - 3 comments

#99 - Ignore more files

Pull Request - State: closed - Opened by richfitz about 4 years ago - 1 comment

#98 - Bump version to 2.2-3

Pull Request - State: closed - Opened by jstockwin about 4 years ago - 1 comment

#97 - Confidence Interal of EpiEStim app - identical for 75% & 25%

Issue - State: closed - Opened by kcng802 about 4 years ago - 5 comments

#96 - Fix quantiles

Pull Request - State: closed - Opened by annecori about 4 years ago - 3 comments

#95 - x-y error in incidence plot

Issue - State: closed - Opened by rdlarah about 4 years ago - 3 comments

#94 - Comparison of EpiEstim::wallinga_teunis and R0::est.R0.TD

Issue - State: open - Opened by tamas-ferenci about 4 years ago - 5 comments
Labels: bug

#93 - Wallinga fix

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

#92 - Error calling `wallinga_teunis` (length mismatch)

Issue - State: closed - Opened by edbaskerville about 4 years ago - 5 comments
Labels: bug

#91 - Add pull request template

Pull Request - State: closed - Opened by jstockwin over 4 years ago - 2 comments

#90 - Allow negative-valued SI (COVID-19 modelling)

Issue - State: open - Opened by giulianonetto over 4 years ago - 9 comments

#89 - Fix broken quantiles (#88)

Pull Request - State: closed - Opened by jstockwin over 4 years ago - 9 comments

#88 - Quantile.0.25(R) always equals Quantile.0.75(R)

Issue - State: closed - Opened by robchallen over 4 years ago - 5 comments
Labels: bug

#87 - update plot method

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

#86 - Ugly TableGrob output in knitr documents when plot() called

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

#85 - Update README.md

Pull Request - State: closed - Opened by annecori almost 5 years ago

#84 - Windows check fix

Pull Request - State: closed - Opened by zkamvar almost 5 years ago - 2 comments

#83 - Fix 35

Pull Request - State: closed - Opened by annecori almost 5 years ago - 5 comments

#82 - Update Title and Description of DESCRIPTION file

Pull Request - State: closed - Opened by zkamvar about 5 years ago

#81 - Anne fixes

Pull Request - State: closed - Opened by annecori about 5 years ago - 11 comments

#80 - check compatibility functions

Issue - State: closed - Opened by annecori about 5 years ago - 3 comments

#79 - Fix 65

Pull Request - State: closed - Opened by zkamvar about 5 years ago - 2 comments

#78 - Modernise vignette

Pull Request - State: closed - Opened by zkamvar about 5 years ago

#77 - use CRAN version of coarseDataTools

Pull Request - State: closed - Opened by zkamvar about 5 years ago - 1 comment

#76 - add sample_posterior_R function

Pull Request - State: closed - Opened by zkamvar about 5 years ago - 4 comments

#75 - Add accurate list of Authors to DESCRIPTION

Issue - State: closed - Opened by zkamvar about 5 years ago - 3 comments

#74 - trim dependencies from DESCRIPTION

Pull Request - State: closed - Opened by zkamvar about 5 years ago - 8 comments

#73 - Remove superfluous packages

Issue - State: closed - Opened by zkamvar about 5 years ago - 1 comment

#72 - Replace compare with testthat::expect_equal_to_reference()

Issue - State: closed - Opened by jstockwin about 5 years ago - 1 comment

#71 - Remove remote for coarseDataTools

Issue - State: closed - Opened by jstockwin about 5 years ago - 1 comment

#70 - add a function to sample from posterior

Issue - State: closed - Opened by annecori about 5 years ago - 1 comment

#66 - Add NEWS.md and summarize changes between versions 1.1-2 and 2

Issue - State: closed - Opened by zkamvar about 5 years ago

#65 - Use incidence accessors instead of bracket notation

Issue - State: closed - Opened by zkamvar about 5 years ago

#63 - Consolidate `new-version` branch with `release`

Issue - State: closed - Opened by zkamvar about 5 years ago - 7 comments

#62 - plot several R at a time

Issue - State: closed - Opened by annecori almost 6 years ago - 3 comments