chjackson/msm issues and pull requests

#104 - pmatrix.msm output same matrix for time-inhomogeneous MV

Issue - State: open - Opened by suyanpengzhang 3 months ago - 1 comment

#103 - Question: CI for transition intensities ratios

Issue - State: closed - Opened by iago-pssjd 4 months ago - 2 comments

#102 - ns() not handled

Issue - State: open - Opened by chjackson 5 months ago

#101 - Too many paths causing errors?

Issue - State: open - Opened by 26pan 5 months ago - 2 comments

#100 - Observations within subjects ... are not ordered by time

Issue - State: closed - Opened by SPriyanshi-30 7 months ago - 2 comments

#99 - initial value in 'vmmin' is not finite

Issue - State: closed - Opened by SPriyanshi-30 7 months ago - 2 comments

#98 - False convergence - Hessian is not positive definite

Issue - State: closed - Opened by sophiakrix 7 months ago - 5 comments

#97 - How does MSM handle missing covariate data?

Issue - State: closed - Opened by nickyd41 8 months ago - 1 comment

#96 - Implementation of Markov polymorphism model with 5 states and 8 paths

Issue - State: closed - Opened by 26pan 9 months ago - 9 comments

#95 - Pearson goodness of fit tests fail for models with covariate interactions

Issue - State: closed - Opened by pkirwan 9 months ago - 1 comment

#94 - prevalence.msm censtime question

Issue - State: closed - Opened by slee-101 9 months ago - 4 comments

#93 - Fitting simple healthy-ill-death model without recovery

Issue - State: closed - Opened by taledv 9 months ago - 12 comments

#92 - People with one observation shouldn't be dropped in hidden Markov models

Issue - State: closed - Opened by chjackson 9 months ago - 1 comment

#91 - Censored states in simfitted.msm

Issue - State: closed - Opened by pkirwan 10 months ago - 1 comment

#90 - Error in estimating transition intensities

Issue - State: closed - Opened by jiali3wang 10 months ago - 2 comments

#89 - A question about very high total times using msm.totlos

Issue - State: closed - Opened by taledv 11 months ago - 14 comments
Labels: question

#88 - Implementing a semi-Markov model using 'msm' package

Issue - State: closed - Opened by kumarr14 11 months ago - 5 comments
Labels: question

#87 - The question of msm

Issue - State: closed - Opened by 26pan 11 months ago - 5 comments

#86 - multiple covariates

Issue - State: closed - Opened by 26pan 11 months ago - 7 comments

#85 - Guidance Request on Addressing Transition Probability Estimation Issue in msm Package

Issue - State: closed - Opened by Tuotuo6613 11 months ago - 4 comments

#84 - Question about maximum likelihood of msm

Issue - State: closed - Opened by 26pan 12 months ago - 5 comments

#83 - Data format

Issue - State: closed - Opened by 26pan about 1 year ago - 2 comments

#82 - Integrate external optimisation results into msm object

Issue - State: closed - Opened by marc-vaisband about 1 year ago - 3 comments

#81 - Question on MSM estimation with very few or no observations for a given transition

Issue - State: closed - Opened by clarks7 about 1 year ago - 2 comments

#80 - Specifying categorical type covariates in msm

Issue - State: closed - Opened by poradamc about 1 year ago - 2 comments

#79 - Calculating log-likelihood on new data

Issue - State: closed - Opened by lzb5600 about 1 year ago

#78 - Any thoughts on adding fraility/multi level models?

Issue - State: closed - Opened by adrose about 1 year ago - 2 comments

#77 - Wall time restriction on optimization

Issue - State: closed - Opened by marc-vaisband over 1 year ago - 1 comment

#75 - msm.aggregate.data logic

Issue - State: closed - Opened by mrgianlu over 1 year ago - 4 comments

#74 - Baseline intensity constraint length when some transitions are never explicitly observed

Issue - State: closed - Opened by marc-vaisband over 1 year ago - 1 comment

#73 - Add fast-path to rtnorm

Pull Request - State: open - Opened by MLopez-Ibanez over 1 year ago - 4 comments

#72 - rtnorm runs forever for valid values

Issue - State: closed - Opened by MLopez-Ibanez over 1 year ago - 5 comments

#71 - fixedpars to specify covariates with constraints

Issue - State: closed - Opened by philophthalmus over 1 year ago - 3 comments

#70 - Constraining transition rates to be equal

Issue - State: closed - Opened by marc-vaisband over 1 year ago - 1 comment

#69 - Error on observations states with exact transitions

Issue - State: closed - Opened by poradamc over 1 year ago - 9 comments

#68 - Working example of a phase-type HMM model

Issue - State: open - Opened by patricknnamdi over 1 year ago - 2 comments
Labels: documentation

#67 - Question about the Viterbi algorithm implementation

Issue - State: closed - Opened by ZexiCAI over 1 year ago - 4 comments

#66 - How does bootstrapping work in msm exactly?

Issue - State: closed - Opened by ZacharyWaller over 1 year ago - 2 comments

#65 - Question: How to assess or use the model

Issue - State: closed - Opened by Derry-L over 1 year ago - 7 comments
Labels: help wanted

#64 - Questions about using weights in msm package

Issue - State: closed - Opened by ghost almost 2 years ago - 4 comments

#63 - I need help with msm model

Issue - State: closed - Opened by olagunjuahmed almost 2 years ago - 3 comments
Labels: help wanted

#62 - Model assessment in the case of censored states and different observation times

Issue - State: closed - Opened by axinaxia almost 2 years ago - 6 comments
Labels: help wanted

#61 - Dear Dr. Jackson , I have a problem I need your help with

Issue - State: closed - Opened by linqianwei95 about 2 years ago - 14 comments
Labels: help wanted

#60 - Faster rpexp that also allows for t != 0 and left truncation

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

#59 - Estimating a physical exercise model

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

#58 - Add electronic health records to panel data?

Issue - State: closed - Opened by axinaxia over 2 years ago - 6 comments

#57 - continuous-time vs. discrete-time models

Issue - State: closed - Opened by axinaxia over 2 years ago - 4 comments

#56 - Error in Pmat[x[1], x[2]] : out of bounds

Issue - State: closed - Opened by agm75 over 2 years ago - 3 comments

#55 - Interpretation of transition intensity

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

#54 - log(hazard ratios) and standard errors?

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

#53 - R msm package does not generate estimates

Issue - State: closed - Opened by liweichen over 2 years ago - 6 comments

#52 - Comparing a multivariate HMM and univariate HMM for binary classification

Issue - State: closed - Opened by antoniogt over 2 years ago - 4 comments
Labels: help wanted

#51 - Markov property

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

#50 - Using inverse probability weight in MSM models

Issue - State: closed - Opened by axinaxia almost 3 years ago - 5 comments

#49 - Issue with bootstrap: "state variable is character"?

Issue - State: closed - Opened by LeoCi1907 almost 3 years ago - 2 comments

#48 - Update GetCensored calls

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

#47 - simmulti.msm fails with hmmMV in hmodel

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

#46 - For HMM, viterbi pstate probabilities ignore obstrue

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

#45 - Edit GetCensored to support multivariate state (revised)

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

#44 - Edit GetCensored to support multivariate state

Pull Request - State: closed - Opened by helmingstay almost 3 years ago - 2 comments

#43 - MSM with covariates :

Issue - State: closed - Opened by ChuanhaiXu almost 3 years ago - 3 comments
Labels: help wanted

#42 - clarify behavior of censor and obstrue per Issue #40

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

#41 - HMM censoring, initprobs, and viterbi.msm pstates

Issue - State: closed - Opened by helmingstay almost 3 years ago - 3 comments
Labels: bug

#40 - HMM censoring and obstrue

Issue - State: closed - Opened by helmingstay almost 3 years ago - 7 comments
Labels: bug

#39 - constraint statement does not work for factor variables.

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

#38 - `ematrix.msm` returns `NULL` on `cav`-example

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

#37 - Changed `seq` calls that use `length` to `length.out`.

Pull Request - State: closed - Opened by CGMossa about 3 years ago - 2 comments

#36 - Viterbi pstate calculations for HMM with initprobs

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

#35 - Interaction between time and covariate

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

#34 - Combining multiple plot.prevalence.msm plots

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

#33 - Never pass a tibble to msm2Surv...

Issue - State: closed - Opened by elfatherbrown almost 4 years ago - 1 comment

#32 - Analysing multicentric panel data with msm

Issue - State: closed - Opened by DamienGeorges almost 4 years ago - 2 comments

#31 - Specifying covariates for qmatrix.msm and ppass.msm in models with piecewise constant intensities

Issue - State: closed - Opened by fintzij almost 4 years ago - 11 comments

#30 - MSM with covariate: Error in omit | (nobspt == 1) : non-conformable arrays

Issue - State: closed - Opened by fintzij almost 4 years ago - 9 comments

#29 - Change reference value of covariates that are factor type

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

#28 - BLAS/LAPACK routine 'DGEBAL' gave error code -3

Issue - State: open - Opened by MThomas312 about 4 years ago - 1 comment
Labels: can't reproduce

#27 - Error in msm.form.dq(qmodel, qcmodel, pars, p, mm.cov) : reached CPU time limit

Issue - State: closed - Opened by alexocampo907 about 4 years ago - 4 comments

#26 - Error with "impossible for given initial state probabilities and outcome model"

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

#25 - initial value in 'vmmin' is not finite

Issue - State: closed - Opened by MThomas312 over 4 years ago - 2 comments

#24 - Perason test broken by qcut

Issue - State: open - Opened by cosgriffc over 4 years ago - 2 comments
Labels: can't reproduce

#23 - Error in if (gen.inits) { : argument is not interpretable as logical with hmmMV

Issue - State: closed - Opened by AA221479 over 4 years ago - 2 comments

#22 - Problem with bootstrapping: Observations within subjects ... are not ordered by time

Issue - State: closed - Opened by ewinter64 almost 5 years ago - 11 comments

#21 - Disagreement in MLE between self implementation and msm

Issue - State: closed - Opened by aaar1 about 5 years ago - 2 comments

#20 - Hmodel2list

Pull Request - State: closed - Opened by wjchulme over 5 years ago - 2 comments

#19 - Added 'newdata' argument to viterbi.msm (issue #18)

Pull Request - State: closed - Opened by wjchulme over 5 years ago - 5 comments

#18 - Predicting HMM state probabilities with new data

Issue - State: closed - Opened by wjchulme almost 6 years ago - 2 comments
Labels: enhancement

#17 - Convert hmodel.object so it can be passed to hmodel argument in msm

Issue - State: closed - Opened by wjchulme almost 6 years ago - 3 comments
Labels: enhancement

#16 - error in print method for hmmMV

Issue - State: closed - Opened by wjchulme almost 6 years ago - 2 comments

#15 - HR p-values

Issue - State: closed - Opened by larmarange almost 6 years ago - 2 comments

#14 - Missing digits=digits in call to print

Issue - State: closed - Opened by Derek-Jones about 6 years ago - 1 comment

#13 - broom::tidy method for msm models

Issue - State: closed - Opened by larmarange about 6 years ago - 4 comments

#12 - Is there a way to constrained the effect of a covariate to be the multiplication of 2 others HR?

Issue - State: closed - Opened by larmarange about 6 years ago - 2 comments

#11 - Saving msm model without underlying data

Issue - State: open - Opened by AlexKram over 6 years ago - 1 comment
Labels: enhancement

#10 - numerical overflow in calculating likelihood

Issue - State: closed - Opened by AlexKram over 6 years ago - 1 comment
Labels: duplicate

GitHub / chjackson/msm issues and pull requests