m6a_miclip: m6a predictions from 3 miCLIP experiments
In dieterich-lab/JACUSA2helper: Post-processing for JACUSA2 output
m6a_miclip R Documentation
m6a predictions from 3 miCLIP experiments
Description
Genomic coordinates (excluding Y chromosome) for m6a sites from 3 experiments:
Boulias et al. 2019,
Koh et al. 2019, and
Koertel et al. 2021.
Usage
data(m6a_miclip)
Format
a GRanges object:
experiments: Character string. Possible values, all combinations of: Boulias, Koh, and Koertel
region ref: Character string. Coordinates, format: "chr:start-end:strand".
References
Koh CWQ, Goh YT, Goh WSS. Atlas of quantitative single-base-resolution n6-methyl-adenine methylomes. Nat Commun. 2019; 10:5636. https://doi.org/10.1038/s41467-019-13561-z.
Boulias K, Toczydłowska-Socha D, Hawley BR, Liberman N, Takashima K, Zaccara S, Guez T, Vasseur J-J, Debart F, Aravind L, Jaffrey SR, Greer EL. Identification of the m, javax.xml.bind.jaxbelement@3155288a, am methyltransferase pcif1 reveals the location and functions of m, javax.xml.bind.jaxbelement@72f29a24, am in the transcriptome. Mol Cell. 2019; 75:631–6438. https://doi.org/10.1016/j.molcel.2019.06.006.
Körtel N, Rücklé C, Zhou Y, Busch A, Hoch-Kraft P, Sutandy FXR, Haase J, Pradhan M, Musheev M, Ostareck D, Ostareck-Lederer A, Dieterich C, Hüttelmaier S, Niehrs C, Rausch O, Dominissini D, König J, Zarnack K. Deep and accurate detection of m6a RNA modifications using miclip2 and m6aboost machine learning. Nucleic Acids Res. 2021; 49:92. https://doi.org/10.1093/nar/gkab485.
dieterich-lab/JACUSA2helper documentation built on March 1, 2023, 12:09 a.m.
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| m6a_miclip | R Documentation |
m6a predictions from 3 miCLIP experiments
Description
Genomic coordinates (excluding Y chromosome) for m6a sites from 3 experiments:
Boulias et al. 2019,
Koh et al. 2019, and
Koertel et al. 2021.
Usage
data(m6a_miclip)
Format
a GRanges object:
experiments: Character string. Possible values, all combinations of: Boulias, Koh, and Koertel
region ref: Character string. Coordinates, format: "chr:start-end:strand".
References
Koh CWQ, Goh YT, Goh WSS. Atlas of quantitative single-base-resolution n6-methyl-adenine methylomes. Nat Commun. 2019; 10:5636. https://doi.org/10.1038/s41467-019-13561-z.
Boulias K, Toczydłowska-Socha D, Hawley BR, Liberman N, Takashima K, Zaccara S, Guez T, Vasseur J-J, Debart F, Aravind L, Jaffrey SR, Greer EL. Identification of the m, javax.xml.bind.jaxbelement@3155288a, am methyltransferase pcif1 reveals the location and functions of m, javax.xml.bind.jaxbelement@72f29a24, am in the transcriptome. Mol Cell. 2019; 75:631–6438. https://doi.org/10.1016/j.molcel.2019.06.006.
Körtel N, Rücklé C, Zhou Y, Busch A, Hoch-Kraft P, Sutandy FXR, Haase J, Pradhan M, Musheev M, Ostareck D, Ostareck-Lederer A, Dieterich C, Hüttelmaier S, Niehrs C, Rausch O, Dominissini D, König J, Zarnack K. Deep and accurate detection of m6a RNA modifications using miclip2 and m6aboost machine learning. Nucleic Acids Res. 2021; 49:92. https://doi.org/10.1093/nar/gkab485.
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Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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