Other packages > Find by keyword >

Explore topics

By keyword . Oldest R packages . Newest R packages . Top downloaded R packages . Datasets . Archived R packages . Top downloaded last week . Top downloaded yesterday

qtl

Star Watch Copy Code

Tools for Analyzing QTL Experiments

View on CRAN: Click here

Download and install qtl package within the R console
Install from CRAN:

 install.packages("qtl")

Install from Github:

 library("remotes")

                        install_github("cran/qtl")

Install by package version:

 library("remotes")

                        install_version("qtl", "1.70")

Attach the package and use:

 library("qtl")

Maintained by
Karl W Broman
[Scholar Profile | Author Map]

All associated links for this package

First Published: 2001-10-30

Latest Update: 2023-04-18

Description:

Analysis of experimental crosses to identify genes (called quantitative trait loci, QTLs) contributing to variation in quantitative traits. Broman et al. (2003) .

How to cite:

Karl W Broman (2001). qtl: Tools for Analyzing QTL Experiments. R package version 1.70, https://cran.r-project.org/web/packages/qtl. Accessed 16 Mar. 2025.

Previous versions and publish date:

0.85-4 (2001-10-30 12:12), 0.92-3 (2002-02-12 20:57), 0.96-5 (2002-09-30 23:04), 0.97-21 (2003-06-21 00:21), 0.97-22 (2004-01-02 16:22), 0.98-57 (2004-09-12 10:03), 0.99-22 (2005-04-26 11:08), 0.99-24 (2005-04-27 10:32), 1.00-15 (2005-09-03 21:44), 1.00-16 (2005-09-04 14:25), 1.00-17 (2005-09-07 17:27), 1.01-9 (2005-10-25 22:28), 1.02-26 (2006-06-08 12:52), 1.03-14 (2006-07-21 10:26), 1.04-52 (2006-10-28 12:42), 1.04-53 (2006-10-29 10:40), 1.05-2 (2006-11-09 11:13), 1.06-43 (2007-08-09 15:01), 1.07-11 (2007-09-21 17:22), 1.07-12 (2007-10-09 22:12), 1.08-55 (2008-04-03 18:28), 1.08-56 (2008-04-09 09:14), 1.09-43 (2008-07-20 11:09), 1.10-27 (2009-01-11 22:26), 1.11-12 (2009-03-29 16:55), 1.12-26 (2009-07-01 14:04), 1.13-7 (2009-09-10 22:15), 1.14-2 (2009-10-01 21:55), 1.15-15 (2010-05-02 19:26), 1.16-4 (2010-05-16 18:20), 1.16-6 (2010-05-25 17:58), 1.17-39 (2010-07-29 11:14), 1.18-7 (2010-08-18 20:21), 1.19-20 (2010-11-30 09:05), 1.20-15 (2011-02-23 10:33), 1.21-2 (2011-03-21 16:34), 1.22-21 (2011-11-29 07:57), 1.23-16 (2012-03-06 20:04), 1.24-9 (2012-05-25 19:13), 1.25-15 (2012-08-14 08:57), 1.26-13 (2012-11-27 15:03), 1.26-14 (2012-11-27 21:25), 1.27-10 (2013-04-11 16:56), 1.28-19 (2013-09-23 23:09), 1.29-2 (2013-12-09 17:08), 1.30-4 (2014-02-11 00:55), 1.31-9 (2014-03-20 07:39), 1.32-10 (2014-05-29 18:40), 1.33-7 (2014-08-12 20:20), 1.34-16 (2014-10-29 19:20), 1.34-17 (2014-10-30 21:22), 1.35-1 (2014-12-13 00:20), 1.35-3 (2014-12-16 04:26), 1.36-6 (2015-03-06 00:47), 1.37-11 (2015-08-25 19:21), 1.38-4 (2015-12-03 16:24), 1.39-5 (2016-03-04 17:34), 1.40-8 (2016-11-05 08:59), 1.41-6 (2017-06-12 08:01), 1.42-7 (2018-02-18 16:31), 1.42-8 (2018-02-19 20:40), 1.44-9 (2019-01-22 18:30), 1.45-11 (2020-02-02 17:40), 1.46-2 (2020-03-12 00:10), 1.47-9 (2021-01-07 22:30), 1.48-1 (2021-03-27 09:40), 1.50 (2021-10-06 18:00), 1.52 (2022-07-09 16:50), 1.54 (2022-12-02 01:20), 1.58 (2023-01-07 19:50), 1.60 (2023-04-18 22:40), 1.62 (2023-11-17 22:00), 1.66 (2023-11-27 21:40)

Other packages that cited qtl R package

View qtl citation profile

Other R packages that qtl depends, imports, suggests or enhances

View qtl dependency map

Complete documentation for qtl

View documentation PDF

Functions, R codes and Examples using the qtl R package

Some associated functions: MQM . a.starting.point . add.cim.covar . add.threshold . addcovarint . addint . addloctocross . addmarker . addpair . addqtl . addtoqtl . allchrsplits . argmax.geno . arithscan . arithscanperm . badorder . bayesint . bristle3 . bristleX . c.cross . c.scanone . c.scanoneperm . c.scantwo . c.scantwoperm . calc.errorlod . calc.genoprob . calc.penalties . cbind.scanoneperm . cbind.scantwoperm . checkAlleles . chrlen . chrnames . cim . clean.cross . clean.scantwo . cleanGeno . comparecrosses . comparegeno . compareorder . condense.scantwo . convert.map . convert.scanone . convert.scantwo . convert2riself . convert2risib . convert2sa . countXO . drop.dupmarkers . drop.markers . drop.nullmarkers . dropfromqtl . droponemarker . effectplot . effectscan . est.map . est.rf . fake.4way . fake.bc . fake.f2 . fill.geno . find.flanking . find.marker . find.markerpos . find.pheno . find.pseudomarker . findDupMarkers . find_large_intervals . findmarkerindex . fitqtl . fitstahl . flip.order . formLinkageGroups . formMarkerCovar . geno.crosstab . geno.image . geno.table . getid . groupclusteredheatmap . hyper . inferFounderHap . inferredpartitions . interpPositions . jittermap . listeria . locateXO . locations . lodint . makeqtl . map10 . map2table . mapthis . markerlrt . markernames . max.scanPhyloQTL . max.scanone . max.scantwo . movemarker . mqmaugment . mqmautocofactors . mqmextractmarkers . mqmfind.marker . mqmgetmodel . mqmpermutation . mqmplotcircle . mqmplotcistrans . mqmplotclusteredheatmap . mqmplotcofactors . mqmplotdirectedqtl . mqmplotheatmap . mqmplotmultitrait . mqmplotpermutations . mqmplotsingletrait . mqmprocesspermutation . mqmscan . mqmscanall . mqmscanfdr . mqmsetcofactors . mqmtestnormal . multitrait . nchr . nind . nmar . nmissing . nphe . nqrank . nqtl . ntyped . nullmarkers . orderMarkers . phenames . pickMarkerSubset . plot.comparegeno . plot.cross . plot.errorlod . plot.geno . plot.info . plot.map . plot.missing . plot.pheno . plot.pxg . plot.qtl . plot.rf . plot.rfmatrix . plot.scanPhyloQTL . plot.scanone . plot.scanoneboot . plot.scanoneperm . plot.scantwo . plot.scantwoperm . plotLodProfile . plotModel . pull.argmaxgeno . pull.draws . pull.geno . pull.genoprob . pull.map . pull.markers . pull.pheno . pull.rf . qtl-internal . qtlversion . read.cross . readMWril . reduce2grid . refineqtl . reorderqtl . replace.map . replacemap.scanone . replacemap.scantwo . replaceqtl . rescalemap . ripple . scanPhyloQTL . scanone . scanoneboot . scanonevar.meanperm . scanonevar . scanonevar.varperm . scanqtl . scantwo . scantwopermhk . shiftmap . sim.cross . sim.geno . sim.map . simFounderSnps . simPhyloQTL . simulateMissingData . stepwiseqtl . strip.partials . subset.cross . subset.map . subset.scanone . subset.scanoneperm . subset.scantwo . subset.scantwoperm . summary.comparegeno . summary.cross . summary.fitqtl . summary.map . summary.qtl . summary.ripple . summary.scanPhyloQTL . summary.scanone . summary.scanoneboot . summary.scanoneperm . summary.scantwo . summary.scantwo.old . summary.scantwoperm . switch.order . switchAlleles . table2map . top.errorlod . totmar . transformPheno . tryallpositions . typingGap . write.cross . xaxisloc.scanone .
Some associated R codes: add.cim.covar.R . add_threshold.R . addmarker.R . addqtl.R . argmax.geno.R . arithscan.R . bcsft.R . calc.genoprob.R . calc.pairprob.R . cim.R . comparegeno.R . compareorder.R . countXO.R . discan.R . droponemarker.R . effectplot.R . effectscan.R . errorlod.R . est.map.R . est.rf.R . find_large_intervals.R . fitqtl.R . fitstahl.R . inferFounderHap.R . interpPositions.R . makeqtl.R . map_construction.R . markerlrt.R . mqmaugment.R . mqmcircleplot.R . mqmcofactors.R . mqmpermutation.R . mqmplots.R . mqmprepare.R . mqmscan.R . mqmscanall.R . mqmsnow.R . mqmutil.R . phyloqtl_scan.R . phyloqtl_sim.R . phyloqtl_util.R . pickMarkerSubset.R . plot.R . plot.scanone.R . plot.scantwo.R . plotModel.R . plotperm.R . pull_stuff.R . qtlcart_io.R . read.cross.R . read.cross.csv.R . read.cross.csvs.R . read.cross.gary.R . read.cross.karl.R . read.cross.mm.R . read.cross.mq.R . read.cross.qtx.R . read.cross.tidy.R . readMWril.R . refineqtl.R . replacemap.R . ril48_reorg.R . ripple.R . scanone.R . scanoneboot.R . scanonevar.R . scanonevar.meanperm.R . scanonevar.varperm.R . scanqtl.R . scantwo.R . scantwopermhk.R . sim.geno.R . sim_ril.R . simulate.R . stepwiseqtl.R . stepwiseqtlX.R . summary.cross.R . summary.scanone.R . summary.scantwo.R . summary.scantwo.old.R . transformPheno.R . tryallpositions.R . util.R . vbscan.R . viridis.R . write.cross.R . write.cross.mq.R . write.cross.qtab.R . xchr.R . Full qtl package functions and examples

Downloads during the last 30 days

Today's Hot Picks in Authors and Packages

latentFactoR

Data Simulation Based on Latent Factors

Generates data based on latent factor models. Data can be continuous, polytomous, dichotomous, or mi ...
Download / Learn more Package Citations See dependency

Maintainer: Alexander Christensen (view profile)

inventorize

Inventory Analytics, Pricing and Markdowns

Simulate inventory policies with and without forecasting, facilitate inventory analysis calculations ...
Download / Learn more Package Citations See dependency

Maintainer: Haytham Omar (view profile)

RCALI

Calculation of the Integrated Flow of Particles Between Polygons

Calculate the flow of particles between polygons by two integration methods: integration by a cubat ...
Download / Learn more Package Citations See dependency

Maintainer: Jean-Francois Rey (view profile)

ggtrace

Trace and Highlight Groups of Data Points

Provides 'ggplot2' geoms that allow groups of data points to be outlined or highlighted for emphasi ...
Download / Learn more Package Citations See dependency

Maintainer: Ryan Sheridan (view profile)

UnitStat

Performs Unit Root Test Statistics

A test to understand the stability of the underlying stochastic data. Helps the user’s understand ...
Download / Learn more Package Citations See dependency

Maintainer: Ankita Sharma (view profile)

quickcode

Quick and Essential 'R' Tricks for Better Scripts

The NOT functions, 'R' tricks and a compilation of some simple quick plus often used 'R' codes to im ...
Download / Learn more Package Citations See dependency

Maintainer: Obinna Obianom (view profile)