curatedMetagenomicData-defunct | R Documentation |
These functions are defunct and no longer available.
The following functions (methods) are defunct:
cmdValidVersions()
getMetaphlanTree()
ExpressionSet2MRexperiment()
ExpressionSet2phyloseq()
The following functions (accessors) are defunct:
AsnicarF_2017.genefamilies_relab.milk()
AsnicarF_2017.genefamilies_relab.stool()
AsnicarF_2017.marker_abundance.milk()
AsnicarF_2017.marker_abundance.stool()
AsnicarF_2017.marker_presence.milk()
AsnicarF_2017.marker_presence.stool()
AsnicarF_2017.metaphlan_bugs_list.milk()
AsnicarF_2017.metaphlan_bugs_list.stool()
AsnicarF_2017.pathabundance_relab.milk()
AsnicarF_2017.pathabundance_relab.stool()
AsnicarF_2017.pathcoverage.milk()
AsnicarF_2017.pathcoverage.stool()
BackhedF_2015.genefamilies_relab.stool()
BackhedF_2015.marker_abundance.stool()
BackhedF_2015.marker_presence.stool()
BackhedF_2015.metaphlan_bugs_list.stool()
BackhedF_2015.pathabundance_relab.stool()
BackhedF_2015.pathcoverage.stool()
Bengtsson-PalmeJ_2015.genefamilies_relab.stool()
Bengtsson-PalmeJ_2015.marker_abundance.stool()
Bengtsson-PalmeJ_2015.marker_presence.stool()
Bengtsson-PalmeJ_2015.metaphlan_bugs_list.stool()
Bengtsson-PalmeJ_2015.pathabundance_relab.stool()
Bengtsson-PalmeJ_2015.pathcoverage.stool()
BritoIL_2016.genefamilies_relab.oralcavity()
BritoIL_2016.genefamilies_relab.stool()
BritoIL_2016.marker_abundance.oralcavity()
BritoIL_2016.marker_abundance.stool()
BritoIL_2016.marker_presence.oralcavity()
BritoIL_2016.marker_presence.stool()
BritoIL_2016.metaphlan_bugs_list.oralcavity()
BritoIL_2016.metaphlan_bugs_list.stool()
BritoIL_2016.pathabundance_relab.oralcavity()
BritoIL_2016.pathabundance_relab.stool()
BritoIL_2016.pathcoverage.oralcavity()
BritoIL_2016.pathcoverage.stool()
Castro_NallarE_2015.genefamilies_relab.oralcavity()
Castro_NallarE_2015.marker_abundance.oralcavity()
Castro_NallarE_2015.marker_presence.oralcavity()
Castro_NallarE_2015.metaphlan_bugs_list.oralcavity()
Castro_NallarE_2015.pathabundance_relab.oralcavity()
Castro_NallarE_2015.pathcoverage.oralcavity()
Castro-NallarE_2015.genefamilies_relab.oralcavity()
Castro-NallarE_2015.marker_abundance.oralcavity()
Castro-NallarE_2015.marker_presence.oralcavity()
Castro-NallarE_2015.metaphlan_bugs_list.oralcavity()
Castro-NallarE_2015.pathabundance_relab.oralcavity()
Castro-NallarE_2015.pathcoverage.oralcavity()
ChengpingW_2017.genefamilies_relab.stool()
ChengpingW_2017.marker_abundance.stool()
ChengpingW_2017.marker_presence.stool()
ChengpingW_2017.metaphlan_bugs_list.stool()
ChengpingW_2017.pathabundance_relab.stool()
ChengpingW_2017.pathcoverage.stool()
ChngKR_2016.genefamilies_relab.skin()
ChngKR_2016.marker_abundance.skin()
ChngKR_2016.marker_presence.skin()
ChngKR_2016.metaphlan_bugs_list.skin()
ChngKR_2016.pathabundance_relab.skin()
ChngKR_2016.pathcoverage.skin()
CosteaPI_2017.genefamilies_relab.stool()
CosteaPI_2017.marker_abundance.stool()
CosteaPI_2017.marker_presence.stool()
CosteaPI_2017.metaphlan_bugs_list.stool()
CosteaPI_2017.pathabundance_relab.stool()
CosteaPI_2017.pathcoverage.stool()
DavidLA_2015.genefamilies_relab.stool()
DavidLA_2015.marker_abundance.stool()
DavidLA_2015.marker_presence.stool()
DavidLA_2015.metaphlan_bugs_list.stool()
DavidLA_2015.pathabundance_relab.stool()
DavidLA_2015.pathcoverage.stool()
DhakanDB_2019.genefamilies_relab.stool()
DhakanDB_2019.marker_abundance.stool()
DhakanDB_2019.marker_presence.stool()
DhakanDB_2019.metaphlan_bugs_list.stool()
DhakanDB_2019.pathabundance_relab.stool()
DhakanDB_2019.pathcoverage.stool()
FengQ_2015.genefamilies_relab.stool()
FengQ_2015.marker_abundance.stool()
FengQ_2015.marker_presence.stool()
FengQ_2015.metaphlan_bugs_list.stool()
FengQ_2015.pathabundance_relab.stool()
FengQ_2015.pathcoverage.stool()
FerrettiP_2018.genefamilies_relab.oralcavity()
FerrettiP_2018.genefamilies_relab.skin()
FerrettiP_2018.genefamilies_relab.stool()
FerrettiP_2018.genefamilies_relab.vagina()
FerrettiP_2018.marker_abundance.oralcavity()
FerrettiP_2018.marker_abundance.skin()
FerrettiP_2018.marker_abundance.stool()
FerrettiP_2018.marker_abundance.vagina()
FerrettiP_2018.marker_presence.oralcavity()
FerrettiP_2018.marker_presence.skin()
FerrettiP_2018.marker_presence.stool()
FerrettiP_2018.marker_presence.vagina()
FerrettiP_2018.metaphlan_bugs_list.oralcavity()
FerrettiP_2018.metaphlan_bugs_list.skin()
FerrettiP_2018.metaphlan_bugs_list.stool()
FerrettiP_2018.metaphlan_bugs_list.vagina()
FerrettiP_2018.pathabundance_relab.oralcavity()
FerrettiP_2018.pathabundance_relab.skin()
FerrettiP_2018.pathabundance_relab.stool()
FerrettiP_2018.pathabundance_relab.vagina()
FerrettiP_2018.pathcoverage.oralcavity()
FerrettiP_2018.pathcoverage.skin()
FerrettiP_2018.pathcoverage.stool()
FerrettiP_2018.pathcoverage.vagina()
GopalakrishnanV_2018.genefamilies_relab.stool()
GopalakrishnanV_2018.marker_abundance.stool()
GopalakrishnanV_2018.marker_presence.stool()
GopalakrishnanV_2018.metaphlan_bugs_list.stool()
GopalakrishnanV_2018.pathabundance_relab.stool()
GopalakrishnanV_2018.pathcoverage.stool()
HanniganGD_2017.genefamilies_relab.stool()
HanniganGD_2017.marker_abundance.stool()
HanniganGD_2017.marker_presence.stool()
HanniganGD_2017.metaphlan_bugs_list.stool()
HanniganGD_2017.pathabundance_relab.stool()
HanniganGD_2017.pathcoverage.stool()
HansenLBS_2018.genefamilies_relab.stool()
HansenLBS_2018.marker_abundance.stool()
HansenLBS_2018.marker_presence.stool()
HansenLBS_2018.metaphlan_bugs_list.stool()
HansenLBS_2018.pathabundance_relab.stool()
HansenLBS_2018.pathcoverage.stool()
Heitz_BuschartA_2016.genefamilies_relab.stool()
Heitz_BuschartA_2016.marker_abundance.stool()
Heitz_BuschartA_2016.marker_presence.stool()
Heitz_BuschartA_2016.metaphlan_bugs_list.stool()
Heitz_BuschartA_2016.pathabundance_relab.stool()
Heitz_BuschartA_2016.pathcoverage.stool()
Heitz-BuschartA_2016.genefamilies_relab.stool()
Heitz-BuschartA_2016.marker_abundance.stool()
Heitz-BuschartA_2016.marker_presence.stool()
Heitz-BuschartA_2016.metaphlan_bugs_list.stool()
Heitz-BuschartA_2016.pathabundance_relab.stool()
Heitz-BuschartA_2016.pathcoverage.stool()
HMP_2012.genefamilies_relab.nasalcavity()
HMP_2012.genefamilies_relab.oralcavity()
HMP_2012.genefamilies_relab.skin()
HMP_2012.genefamilies_relab.stool()
HMP_2012.genefamilies_relab.vagina()
HMP_2012.marker_abundance.nasalcavity()
HMP_2012.marker_abundance.oralcavity()
HMP_2012.marker_abundance.skin()
HMP_2012.marker_abundance.stool()
HMP_2012.marker_abundance.vagina()
HMP_2012.marker_presence.nasalcavity()
HMP_2012.marker_presence.oralcavity()
HMP_2012.marker_presence.skin()
HMP_2012.marker_presence.stool()
HMP_2012.marker_presence.vagina()
HMP_2012.metaphlan_bugs_list.nasalcavity()
HMP_2012.metaphlan_bugs_list.oralcavity()
HMP_2012.metaphlan_bugs_list.skin()
HMP_2012.metaphlan_bugs_list.stool()
HMP_2012.metaphlan_bugs_list.vagina()
HMP_2012.pathabundance_relab.nasalcavity()
HMP_2012.pathabundance_relab.oralcavity()
HMP_2012.pathabundance_relab.skin()
HMP_2012.pathabundance_relab.stool()
HMP_2012.pathabundance_relab.vagina()
HMP_2012.pathcoverage.nasalcavity()
HMP_2012.pathcoverage.oralcavity()
HMP_2012.pathcoverage.skin()
HMP_2012.pathcoverage.stool()
HMP_2012.pathcoverage.vagina()
JieZ_2017.genefamilies_relab.stool()
JieZ_2017.marker_abundance.stool()
JieZ_2017.marker_presence.stool()
JieZ_2017.metaphlan_bugs_list.stool()
JieZ_2017.pathabundance_relab.stool()
JieZ_2017.pathcoverage.stool()
KarlssonFH_2013.genefamilies_relab.stool()
KarlssonFH_2013.marker_abundance.stool()
KarlssonFH_2013.marker_presence.stool()
KarlssonFH_2013.metaphlan_bugs_list.stool()
KarlssonFH_2013.pathabundance_relab.stool()
KarlssonFH_2013.pathcoverage.stool()
KieserS_2018.genefamilies_relab.stool()
KieserS_2018.marker_abundance.stool()
KieserS_2018.marker_presence.stool()
KieserS_2018.metaphlan_bugs_list.stool()
KieserS_2018.pathabundance_relab.stool()
KieserS_2018.pathcoverage.stool()
KosticAD_2015.genefamilies_relab.stool()
KosticAD_2015.marker_abundance.stool()
KosticAD_2015.marker_presence.stool()
KosticAD_2015.metaphlan_bugs_list.stool()
KosticAD_2015.pathabundance_relab.stool()
KosticAD_2015.pathcoverage.stool()
LeChatelierE_2013.genefamilies_relab.stool()
LeChatelierE_2013.marker_abundance.stool()
LeChatelierE_2013.marker_presence.stool()
LeChatelierE_2013.metaphlan_bugs_list.stool()
LeChatelierE_2013.pathabundance_relab.stool()
LeChatelierE_2013.pathcoverage.stool()
LiJ_2014.genefamilies_relab.stool()
LiJ_2014.marker_abundance.stool()
LiJ_2014.marker_presence.stool()
LiJ_2014.metaphlan_bugs_list.stool()
LiJ_2014.pathabundance_relab.stool()
LiJ_2014.pathcoverage.stool()
LiJ_2017.genefamilies_relab.stool()
LiJ_2017.marker_abundance.stool()
LiJ_2017.marker_presence.stool()
LiJ_2017.metaphlan_bugs_list.stool()
LiJ_2017.pathabundance_relab.stool()
LiJ_2017.pathcoverage.stool()
LiSS_2016.genefamilies_relab.stool()
LiSS_2016.marker_abundance.stool()
LiSS_2016.marker_presence.stool()
LiSS_2016.metaphlan_bugs_list.stool()
LiSS_2016.pathabundance_relab.stool()
LiSS_2016.pathcoverage.stool()
LiuW_2016.genefamilies_relab.stool()
LiuW_2016.marker_abundance.stool()
LiuW_2016.marker_presence.stool()
LiuW_2016.metaphlan_bugs_list.stool()
LiuW_2016.pathabundance_relab.stool()
LiuW_2016.pathcoverage.stool()
LomanNJ_2013.genefamilies_relab.stool()
LomanNJ_2013.marker_abundance.stool()
LomanNJ_2013.marker_presence.stool()
LomanNJ_2013.metaphlan_bugs_list.stool()
LomanNJ_2013.pathabundance_relab.stool()
LomanNJ_2013.pathcoverage.stool()
LoombaR_2017.genefamilies_relab.stool()
LoombaR_2017.marker_abundance.stool()
LoombaR_2017.marker_presence.stool()
LoombaR_2017.metaphlan_bugs_list.stool()
LoombaR_2017.pathabundance_relab.stool()
LoombaR_2017.pathcoverage.stool()
LouisS_2016.genefamilies_relab.stool()
LouisS_2016.marker_abundance.stool()
LouisS_2016.marker_presence.stool()
LouisS_2016.metaphlan_bugs_list.stool()
LouisS_2016.pathabundance_relab.stool()
LouisS_2016.pathcoverage.stool()
MatsonV_2018.genefamilies_relab.stool()
MatsonV_2018.marker_abundance.stool()
MatsonV_2018.marker_presence.stool()
MatsonV_2018.metaphlan_bugs_list.stool()
MatsonV_2018.pathabundance_relab.stool()
MatsonV_2018.pathcoverage.stool()
NielsenHB_2014.genefamilies_relab.stool()
NielsenHB_2014.marker_abundance.stool()
NielsenHB_2014.marker_presence.stool()
NielsenHB_2014.metaphlan_bugs_list.stool()
NielsenHB_2014.pathabundance_relab.stool()
NielsenHB_2014.pathcoverage.stool()
Obregon_TitoAJ_2015.genefamilies_relab.stool()
Obregon_TitoAJ_2015.marker_abundance.stool()
Obregon_TitoAJ_2015.marker_presence.stool()
Obregon_TitoAJ_2015.metaphlan_bugs_list.stool()
Obregon_TitoAJ_2015.pathabundance_relab.stool()
Obregon_TitoAJ_2015.pathcoverage.stool()
Obregon-TitoAJ_2015.genefamilies_relab.stool()
Obregon-TitoAJ_2015.marker_abundance.stool()
Obregon-TitoAJ_2015.marker_presence.stool()
Obregon-TitoAJ_2015.metaphlan_bugs_list.stool()
Obregon-TitoAJ_2015.pathabundance_relab.stool()
Obregon-TitoAJ_2015.pathcoverage.stool()
OhJ_2014.genefamilies_relab.skin()
OhJ_2014.marker_abundance.skin()
OhJ_2014.marker_presence.skin()
OhJ_2014.metaphlan_bugs_list.skin()
OhJ_2014.pathabundance_relab.skin()
OhJ_2014.pathcoverage.skin()
OlmMR_2017.genefamilies_relab.oralcavity()
OlmMR_2017.genefamilies_relab.skin()
OlmMR_2017.genefamilies_relab.stool()
OlmMR_2017.marker_abundance.oralcavity()
OlmMR_2017.marker_abundance.skin()
OlmMR_2017.marker_abundance.stool()
OlmMR_2017.marker_presence.oralcavity()
OlmMR_2017.marker_presence.skin()
OlmMR_2017.marker_presence.stool()
OlmMR_2017.metaphlan_bugs_list.oralcavity()
OlmMR_2017.metaphlan_bugs_list.skin()
OlmMR_2017.metaphlan_bugs_list.stool()
OlmMR_2017.pathabundance_relab.oralcavity()
OlmMR_2017.pathabundance_relab.skin()
OlmMR_2017.pathabundance_relab.stool()
OlmMR_2017.pathcoverage.oralcavity()
OlmMR_2017.pathcoverage.skin()
OlmMR_2017.pathcoverage.stool()
PasolliE_2018.genefamilies_relab.stool()
PasolliE_2018.marker_abundance.stool()
PasolliE_2018.marker_presence.stool()
PasolliE_2018.metaphlan_bugs_list.stool()
PasolliE_2018.pathabundance_relab.stool()
PasolliE_2018.pathcoverage.stool()
PehrssonE_2016.genefamilies_relab.stool()
PehrssonE_2016.marker_abundance.stool()
PehrssonE_2016.marker_presence.stool()
PehrssonE_2016.metaphlan_bugs_list.stool()
PehrssonE_2016.pathabundance_relab.stool()
PehrssonE_2016.pathcoverage.stool()
QinJ_2012.genefamilies_relab.stool()
QinJ_2012.marker_abundance.stool()
QinJ_2012.marker_presence.stool()
QinJ_2012.metaphlan_bugs_list.stool()
QinJ_2012.pathabundance_relab.stool()
QinJ_2012.pathcoverage.stool()
QinN_2014.genefamilies_relab.stool()
QinN_2014.marker_abundance.stool()
QinN_2014.marker_presence.stool()
QinN_2014.metaphlan_bugs_list.stool()
QinN_2014.pathabundance_relab.stool()
QinN_2014.pathcoverage.stool()
RampelliS_2015.genefamilies_relab.stool()
RampelliS_2015.marker_abundance.stool()
RampelliS_2015.marker_presence.stool()
RampelliS_2015.metaphlan_bugs_list.stool()
RampelliS_2015.pathabundance_relab.stool()
RampelliS_2015.pathcoverage.stool()
RaymondF_2016.genefamilies_relab.stool()
RaymondF_2016.marker_abundance.stool()
RaymondF_2016.marker_presence.stool()
RaymondF_2016.metaphlan_bugs_list.stool()
RaymondF_2016.pathabundance_relab.stool()
RaymondF_2016.pathcoverage.stool()
SchirmerM_2016.genefamilies_relab.stool()
SchirmerM_2016.marker_abundance.stool()
SchirmerM_2016.marker_presence.stool()
SchirmerM_2016.metaphlan_bugs_list.stool()
SchirmerM_2016.pathabundance_relab.stool()
SchirmerM_2016.pathcoverage.stool()
ShiB_2015.genefamilies_relab.oralcavity()
ShiB_2015.marker_abundance.oralcavity()
ShiB_2015.marker_presence.oralcavity()
ShiB_2015.metaphlan_bugs_list.oralcavity()
ShiB_2015.pathabundance_relab.oralcavity()
ShiB_2015.pathcoverage.oralcavity()
SmitsSA_2017.genefamilies_relab.stool()
SmitsSA_2017.marker_abundance.stool()
SmitsSA_2017.marker_presence.stool()
SmitsSA_2017.metaphlan_bugs_list.stool()
SmitsSA_2017.pathabundance_relab.stool()
SmitsSA_2017.pathcoverage.stool()
TettAJ_2016.genefamilies_relab.skin()
TettAJ_2016.marker_abundance.skin()
TettAJ_2016.marker_presence.skin()
TettAJ_2016.metaphlan_bugs_list.skin()
TettAJ_2016.pathabundance_relab.skin()
TettAJ_2016.pathcoverage.skin()
TettAJ_2019_a.genefamilies_relab.stool()
TettAJ_2019_a.marker_abundance.stool()
TettAJ_2019_a.marker_presence.stool()
TettAJ_2019_a.metaphlan_bugs_list.stool()
TettAJ_2019_a.pathabundance_relab.stool()
TettAJ_2019_a.pathcoverage.stool()
TettAJ_2019_b.genefamilies_relab.stool()
TettAJ_2019_b.marker_abundance.stool()
TettAJ_2019_b.marker_presence.stool()
TettAJ_2019_b.metaphlan_bugs_list.stool()
TettAJ_2019_b.pathabundance_relab.stool()
TettAJ_2019_b.pathcoverage.stool()
TettAJ_2019_c.genefamilies_relab.stool()
TettAJ_2019_c.marker_abundance.stool()
TettAJ_2019_c.marker_presence.stool()
TettAJ_2019_c.metaphlan_bugs_list.stool()
TettAJ_2019_c.pathabundance_relab.stool()
TettAJ_2019_c.pathcoverage.stool()
ThomasAM_2018a.genefamilies_relab.stool()
ThomasAM_2018a.marker_abundance.stool()
ThomasAM_2018a.marker_presence.stool()
ThomasAM_2018a.metaphlan_bugs_list.stool()
ThomasAM_2018a.pathabundance_relab.stool()
ThomasAM_2018a.pathcoverage.stool()
ThomasAM_2018b.genefamilies_relab.stool()
ThomasAM_2018b.marker_abundance.stool()
ThomasAM_2018b.marker_presence.stool()
ThomasAM_2018b.metaphlan_bugs_list.stool()
ThomasAM_2018b.pathabundance_relab.stool()
ThomasAM_2018b.pathcoverage.stool()
VatanenT_2016.genefamilies_relab.stool()
VatanenT_2016.marker_abundance.stool()
VatanenT_2016.marker_presence.stool()
VatanenT_2016.metaphlan_bugs_list.stool()
VatanenT_2016.pathabundance_relab.stool()
VatanenT_2016.pathcoverage.stool()
VincentC_2016.genefamilies_relab.stool()
VincentC_2016.marker_abundance.stool()
VincentC_2016.marker_presence.stool()
VincentC_2016.metaphlan_bugs_list.stool()
VincentC_2016.pathabundance_relab.stool()
VincentC_2016.pathcoverage.stool()
VogtmannE_2016.genefamilies_relab.stool()
VogtmannE_2016.marker_abundance.stool()
VogtmannE_2016.marker_presence.stool()
VogtmannE_2016.metaphlan_bugs_list.stool()
VogtmannE_2016.pathabundance_relab.stool()
VogtmannE_2016.pathcoverage.stool()
XieH_2016.genefamilies_relab.stool()
XieH_2016.marker_abundance.stool()
XieH_2016.marker_presence.stool()
XieH_2016.metaphlan_bugs_list.stool()
XieH_2016.pathabundance_relab.stool()
XieH_2016.pathcoverage.stool()
YeZ_2018.genefamilies_relab.stool()
YeZ_2018.marker_abundance.stool()
YeZ_2018.marker_presence.stool()
YeZ_2018.metaphlan_bugs_list.stool()
YeZ_2018.pathabundance_relab.stool()
YeZ_2018.pathcoverage.stool()
YuJ_2015.genefamilies_relab.stool()
YuJ_2015.marker_abundance.stool()
YuJ_2015.marker_presence.stool()
YuJ_2015.metaphlan_bugs_list.stool()
YuJ_2015.pathabundance_relab.stool()
YuJ_2015.pathcoverage.stool()
ZeeviD_2015.genefamilies_relab.stool()
ZeeviD_2015.marker_abundance.stool()
ZeeviD_2015.marker_presence.stool()
ZeeviD_2015.metaphlan_bugs_list.stool()
ZeeviD_2015.pathabundance_relab.stool()
ZeeviD_2015.pathcoverage.stool()
ZellerG_2014.genefamilies_relab.stool()
ZellerG_2014.marker_abundance.stool()
ZellerG_2014.marker_presence.stool()
ZellerG_2014.metaphlan_bugs_list.stool()
ZellerG_2014.pathabundance_relab.stool()
ZellerG_2014.pathcoverage.stool()
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