版本1.25.xx（2019） +添加的'Wrenchnorm'函数 +添加了“在“ mrexperiment”对象中使用ihw作为'mrcoefs' +修改的'expsummary'插槽中的ihw的选项环境” +添加了“ Fitzig”和“ FitFeatureModel”结果版本1.21.xx（2018） +许多更改的结果类。添加了更大的灵活性，以更大的灵活性版本1.15.xx（2016） +添加了'mergemrexperiment'函数 +添加的“ normfactors”和“ libsize”和“ libsize” grenics +添加了“ fitmultipletimeseries”函数 +替换runit +替换为testthat库，用于整个单位测试 +添加多个升级和更改 ++弃用load_*函数并创建了加载*功能。版本1.13.xx（2015） +升级对生物格式的升级支持与2.0 +固定问题 - “当用户请求比可用的功能更多的功能时，将报告Na行” +固定的S2 S2错误计算版本1.11.xx（2015）（2015）+添加fitFeatUremodel-基于功能的零充气对数正态模型。+添加了MRTABLE，MRTABLE，MRFULLTABLE对FITFEATUREMODEL输出的支持。+在小插图中添加了提及。+添加了对标准化矩阵而不仅仅是mrexperiment对象的支持。+固定的cumnormstat的非默认QFLAG选项版本1.9.xx（2015） +在公式选择中添加灵活性 + sspermanalysis中添加的可读性 + plotclasstimeseries中的固定默认值（包括= c（“ 1”，...））Vignette +删除了互动的效果到命名空间 - 移至建议 + MRTABLE，MRFULLTABLE的固定排序前四列 +通过职责估算估计的修改DF +将FITMETA估算为Fitlognormal-更合适的名称版本1.7.xx（2014-05-07） +添加功能 +添加功能 + plotBubble + Added parallel (multi-core) options to fitPA, fitDO + Fixed bug for fitMeta when useCSSoffset=FALSE and model matrix ncol==2 + (1.7.10) Updated default quantile estimate (.5) for low estimates + (1.7.10) Added short description on how to do multiple group comparisons + (1.7.15) Output of fitZig (eb) is now a result of limma::eBayes instead of limma::ebayes + (1.7.16) plotMRheatmap allows for sorting by any stat (not just sd) + (1.7.18) fitTimeSeries Including times series method for differentially abundant time intervals + (1.7.20) Fixed minor bug for OTU level time series analyses and added plotClassTimeSeries + (1.7.26) Added warning / fix if any samples are empty in cumNormStat + (1.7.27) Added a few unit tests + (1.7.29) Added interactiveDisplay to namespace (display function allows interactive exploration / plots through browser) version 1.5.xx (2014-04-17) + Incorporating biom-format support with the biom2MRexperiment, MRexperiment2biom and load_biome function. + Added uniqueFeatures, filterData, aggregateByTaxonomy / aggTax, plotFeature and calculateEffectiveSamples functions. + Renamed MRfisher to fitPA (presence-absence fisher test). + Added warnings for normalization + Added fitDO (Discovery odds ratio test) and fitMeta (original metastats). + Added match.call() info to fitZig output + Fixed missing E-Step bounds version 1.2.xx (2013-08-20) + Our paper got accepted and is available! + Added methods for MRexperiment objects (colSums,colMeans,rowSums,rowMeans, usage is for example colSums(obj) or colSums(obj,norm=TRUE)) (09-25) + Added two new functions, plotOrd and plotRare - a function to plot PCA/MDS coordinates and rarefaction effect (09-04,09-18) + Updated MRfisher to include thresholding for presence-absence testing (08-19) + Updated comments (roxygen2) style for all the functions using the Rd2roxygen package (07-13) + Updated plotCorr and plotMRheatmap to allow various colors/not require trials(07-13) + Rewrote vignette (and switched to knitr) version 1.1.xx (last update 2013-06-25) + Rewrote load_meta and load_metaQ to be faster/use less memory + Modified cumNormStat to remove NA samples from calculations (example would be samples without any counts) + Re-added plotGenus' jitter + Fixed uniqueNames call in the MR tables + Changed thanks to Kasper Daniel Hansen's suggestions the following: plotOTU and plotGenus both have much better auto-generated axis MRtable, MRfulltable, MRcoefs have a sort by p-value option now MRtable, MRfulltable, MRcoefs now have an extra option to include unique numbers for OTU features (default would automatically add them previously) cumNorm.R - now returns the object as well - not just replacing the environment 0 Still need to turn the fitZig output to S3, consider subsetting function address low p-values version 1.0.0: (2013-03-29) + Release!