weiss2021_data: Example data from Weiss et al.
In tuv292/abx_idx: Modeling the Susceptibility of a Bacterial Community to Antibiotics
weiss2021_data R Documentation
Example data from Weiss et al.
Description
Example data from Weiss et al.
Usage
weiss2021_data
Format
A data frame with the following columns:
- sample_id
The name of the sample
- lineage
-
The taxonomic assignments from QIIME2. We removed any species-level
taxa and blank taxa ("g__", etc.) from the assignments. Otherwise,
the assignments are in the same format as they were when generated
by the software.
- proportion
The proportion of the lineage in the sample
- subject_id
The subject identifier
- study_group
The group, either "Healthy" or "Sepsis"
- study_window
-
The time window in which the sample was collected. The study window is
NA for healthy subjects.
References
Weiss SL, Bittinger K, Lee JJ, Friedman ES, Mattei LM, Graham K, Zhang D,
Bush J, Balamuth F, McGowan FX Jr, Bushman FD, Baldassano RN, Wu GD,
Wallace DC, Collman RG. Decreased Intestinal Microbiome Diversity in
Pediatric Sepsis: A Conceptual Framework for Intestinal Dysbiosis to
Influence Immunometabolic Function. Crit Care Explor. 2021 Mar
17;3(3):e0360. doi: 10.1097/CCE.0000000000000360. PMID: 33786436; PMCID:
PMC7994045.
tuv292/abx_idx documentation built on Jan. 12, 2023, 12:48 a.m.
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| weiss2021_data | R Documentation |
Example data from Weiss et al.
Description
Example data from Weiss et al.
Usage
weiss2021_data
Format
A data frame with the following columns:
- sample_id
The name of the sample
- lineage
-
The taxonomic assignments from QIIME2. We removed any species-level taxa and blank taxa ("g__", etc.) from the assignments. Otherwise, the assignments are in the same format as they were when generated by the software.
- proportion
The proportion of the lineage in the sample
- subject_id
The subject identifier
- study_group
The group, either "Healthy" or "Sepsis"
- study_window
-
The time window in which the sample was collected. The study window is
NAfor healthy subjects.
References
Weiss SL, Bittinger K, Lee JJ, Friedman ES, Mattei LM, Graham K, Zhang D, Bush J, Balamuth F, McGowan FX Jr, Bushman FD, Baldassano RN, Wu GD, Wallace DC, Collman RG. Decreased Intestinal Microbiome Diversity in Pediatric Sepsis: A Conceptual Framework for Intestinal Dysbiosis to Influence Immunometabolic Function. Crit Care Explor. 2021 Mar 17;3(3):e0360. doi: 10.1097/CCE.0000000000000360. PMID: 33786436; PMCID: PMC7994045.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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