SED-ML KiSAO issues - Githubissues

SED-ML / KiSAO

Ontology of algorithms for analyzing biological models, their parameters, and their outputs

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Create new 'DAE Solver' category; put IDA-like things in it.

#115 luciansmith closed 3 months ago
1
Make 407 the root-finding steady state algorithm.

#114 luciansmith closed 1 year ago
0
A handful of changes:

#113 luciansmith closed 1 year ago
1
Automatic releases no longer working

#112 luciansmith opened 1 year ago
2
Update for release

#111 luciansmith closed 1 year ago
0
Add two new terms, change organization.

#110 luciansmith closed 1 year ago
5
Request: New base 'simulate in time' algorithm

#109 luciansmith closed 1 year ago
4
Fix typo in definition of "biological state optimization method"

#108 jonrkarr closed 3 months ago
0
feat: added algorithm concepts for MPP

#107 jonrkarr closed 2 years ago
6
Enable query algorithms for recommendations for algorithms to be terms for abstract classes of algorithms (e.g., Gillespie-like rather than SSA)

#106 jonrkarr opened 2 years ago
0
feat: Added algorithms and characteristics for attractor methods in mpbn

#105 jonrkarr opened 2 years ago
0
New terms for mpbn

#104 pauleve opened 2 years ago
8
Automatic update of KISAO on obo foundry and ontology lookup service (OLS)

#103 matthiaskoenig opened 2 years ago
6
Release 2.30 not triggered

#102 matthiaskoenig closed 2 years ago
3
SED-ML aggregation functions

#101 matthiaskoenig closed 2 years ago
0
Add terms for terms of UniformTimeCourse

#100 luciansmith opened 2 years ago
4
labels of systems properties should be lowercase

#99 matthiaskoenig closed 2 years ago
5
Some KISAO terms fail lookup with `get_normalized_id`

#98 matthiaskoenig closed 2 years ago
3
Some KISAO terms do not match KISAO pattern

#97 matthiaskoenig closed 2 years ago
3
New terms for uniform time course attributes

#96 jonrkarr opened 3 years ago
0
Specify that math functions ignore NaN.

#95 luciansmith closed 3 years ago
1
Clarify math functions as to whether to ignore NaN

#94 luciansmith closed 3 years ago
3
SED-ML Aggregation function (New terms for count, stddev, variance)

#93 jonrkarr closed 2 years ago
5
Lps karr new terms

#92 jonrkarr closed 3 years ago
1
New KiSAO terms from https://docs.google.com/spreadsheets/d/1f3rBUUhO…

#91 luciansmith closed 3 years ago
2
New terms for SED-ML use

#90 luciansmith closed 3 years ago
13
Automate release to BioPortal in GitHub action

#88 jonrkarr closed 3 years ago
2
Change redirect for biomodels.net from SourceForge to GitHub

#87 jonrkarr closed 3 years ago
1
Add terms for slices of dimensions of (in)dependent variables of outputs of simulations

#86 jonrkarr opened 3 years ago
2
Add terms for (in)dependent variables of outputs of simulations

#85 jonrkarr closed 3 years ago
11
New algorithm for GillesPy2 Hybrid Tau-Leaping Method

#84 jonrkarr closed 3 years ago
2
Some recently added terms are not visibile in the Ontology Lookup Service

#83 jonrkarr closed 3 years ago
3
New parameter for species transition probabilities for asynchonrous logical model simulation method

#82 jonrkarr closed 3 years ago
2
New algorithm for probabilistic logical model simulation method

#81 jonrkarr closed 3 years ago
2
New parameter for noise level

#80 jonrkarr closed 3 years ago
2
New parameter for absolute tolerance adjustment factor for CVODE

#79 jonrkarr closed 3 years ago
2
New parameter for auto reduce tolerances

#78 jonrkarr closed 3 years ago
2
New algorithm for Stochastic second order Runge-Kutta method

#77 jonrkarr closed 3 years ago
2
New algorithm for nleq2

#76 jonrkarr closed 3 years ago
2
New algorithm for Stochastic differential equation method

#75 jonrkarr closed 3 years ago
3
New parameter for force physical correctness

#74 jonrkarr closed 3 years ago
2
New parameter for absolute tolerance for root finding

#73 jonrkarr closed 3 years ago
2
New algorithm for stochastic Runge-Kutta method

#72 jonrkarr closed 3 years ago
2
Pahle hybrid Gibson-Bruck Next Reaction method/RK-45 method

#71 jonrkarr closed 3 years ago
2
New algorithm for Pahle hybrid Gibson-Bruck Next Reaction method/LSODA method

#70 jonrkarr closed 3 years ago
2
New algorithm for Pahle hybrid Gibson-Bruck Next Reaction method/Runge-Kutta metho

#69 jonrkarr closed 3 years ago
4
New algorithm for LSODA or LSODAR

#68 jonrkarr closed 3 years ago
2
New parameter for initial step size

#67 jonrkarr closed 3 years ago
2
Parameter for relative steady-state tolerance for CVODES

#66 jonrkarr closed 3 years ago
2
Parameter for absolute steady-state tolerance for CVODES

#65 jonrkarr closed 3 years ago
2