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NEWS
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CHANGES IN VERSION 2.5.1 2021-12-02
------------------------------------
NEW FEATURES
o Support defining ratio of sample size between two groups by parameter k
BUG FIXES
o Change website URL in vignette
o Not-Run some example codes
CHANGES IN VERSION 1.99.3 2020-10-23
------------------------------------
BUG FIXES
o Change codes to make the package pass all Rcmd check with R 4.0.3
CHANGES IN VERSION 1.19.2 2020-10-02
------------------------------------
BUG FIXES
o Change codes to make the package pass all Rcmd check with R 4.0
CHANGES IN VERSION 1.19.1 2020-09-30
------------------------------------
BUG FIXES
o Fix a bug in est_power_distribution, which make results incorrect when power is very large.
CHANGES IN VERSION 1.15.1 2018-11-12
------------------------------------
BUG FIXES
o Fix a bug in power estiamtion (cumsumBorder.cpp), which make results incorrect when k not equal to one.
CHANGES IN VERSION 1.9.1 2017-08-03
------------------------------------
BUG FIXES
o Fix a bug about estimating genes in pathway power in est_power_distribution function, which was caused by update of KEGG web site.
CHANGES IN VERSION 0.99.8 2015-04-12
------------------------------------
BUG FIXES
o Fix a bug in example of optimize_parameter function, which was caused by update of heatmap3 package. Thanks Dan.
CHANGES IN VERSION 0.99.7 2015-04-06
------------------------------------
BUG FIXES
o Fix a bug in example of convertId function, which was caused by update of BioMart database. Thanks Dan.
CHANGES IN VERSION 0.99.5 2015-04-06
------------------------------------
SIGNIFICANT USER-VISIBLE CHANGES
o Minor changes for genes with less than 1 read count;
CHANGES IN VERSION 0.99.4
-------------------------
NEW FEATURES
o The user friendly web interface was improved
BUG FIXES
o Bug fixed: Max sample size for distribution based sample size estimation;
o Bug fixed: Keep consistent for all function names;
SIGNIFICANT USER-VISIBLE CHANGES
o Other improvement based on the comments from Bioconductor reviewer;
CHANGES IN VERSION 0.99.3 2014-11-23
------------------------------------
SIGNIFICANT USER-VISIBLE CHANGES
o New parameter: countFilterInRawDistribution, selectedGeneFilterByCount;
o Other improvement based on the comments from Bioconductor reviewer;
CHANGES IN VERSION 0.99.2
-------------------------
SIGNIFICANT USER-VISIBLE CHANGES
o The vignette was switched to a BiocStyle;
o Other improvement based on the comments from Bioconductor reviewer;
CHANGES IN VERSION 0.99.1 2014-10-19
------------------------------------
SIGNIFICANT USER-VISIBLE CHANGES
o Parameter was used to determine the power of genes below minAveCount;
o Some recommendations from BiocCheck were improved;
CHANGES IN VERSION 0.99.0 2014-10-16
------------------------------------
SIGNIFICANT USER-VISIBLE CHANGES
o Submit to Bioconductor.
CHANGES IN VERSION 0.5.0 2014-10-15
-----------------------------------
NEW FEATURES
o The datasets from TCGA were moved to RnaSeqSampleSizeData package;
o The examples were improved;
o The vignette was generated;
CHANGES IN VERSION 0.4.0 2014-10-10
-----------------------------------
NEW FEATURES
o Rcpp package was used to make some functions faster;
o The package structure was improved;
o The web interface was improved;
CHANGES IN VERSION 0.3.0 2014-08-01
-----------------------------------
NEW FEATURES
o Beta approximate method was improved and used in most of the cases;
o Read count and dispersion distribution estimation function was improved;
o Estimation power or sample size by read count and dispersion distribution was improved.
RnaSeqSampleSize 0.2.0 2014-06-01
---------------------------------
NEW FEATURES
o The function of estimation power or sample size by read count and dispersion distribution was imported and improved.
CHANGES IN VERSION 0.1.7 2014-03-30
-----------------------------------
SIGNIFICANT USER-VISIBLE CHANGES
o An approximate estimation method was used to decrease the running time when average read count (lambda0) was larger than 20;
NEW FEATURES
o A plotting power curve function plot_power_curve was provided;
CHANGES IN VERSION 0.1.6 2014-03-19
-----------------------------------
SIGNIFICANT USER-VISIBLE CHANGES
o The code was improved to fit the web interface;
NEW FEATURES
o The function est_power was provided for power estimation;
BUG FIXES
o A bug was fixed;
CHANGES IN VERSION 0.1.5 2014-03-16
-----------------------------------
SIGNIFICANT USER-VISIBLE CHANGES
o The C code for R function dnbinom was improved to decrease the running time greatly;
o The powers for different N in estimating sample size were returned to prepare power curve;
CHANGES IN VERSION 0.1.4 2014-03-01
------------------------------------
NEW FEATURES
o A user friendly web interface was provided at http://cqs.mc.vanderbilt.edu/shiny/RnaSeqSampleSize/;
CHANGES IN VERSION 0.1.3 2014-02-17
-----------------------------------
SIGNIFICANT USER-VISIBLE CHANGES
o The algorithm was improved to decrease the memory usage;
CHANGES IN VERSION 0.1.2 2014-02-04
-----------------------------------
SIGNIFICANT USER-VISIBLE CHANGES
o A more detail parameter to sample size table was provided;
o The algorithm was improved to decrease the running time and memory usage;
CHANGES IN VERSION 0.1.1 2014-02-04
-----------------------------------
SIGNIFICANT USER-VISIBLE CHANGES
o The algorithm was improved to decrease the running time greatly;
CHANGES IN VERSION 0.1.0 2014-01-24
-----------------------------------
SIGNIFICANT USER-VISIBLE CHANGES
o A more detail parameter to sample size table was provided to make sample size estimation faster;
o An estimated time to perform sample size estimation will be displayed;
BUG FIXES
o A bug fixed when sample size N equals to 1;
CHANGES IN VERSION 0.0.1 2014-01-10
-----------------------------------
SIGNIFICANT USER-VISIBLE CHANGES
o First version.