voom: precision weights unlock linear model analysis tools for RNA-seq read counts

por Law, Charity W, Chen, Yunshun, Shi, Wei, Smyth, Gordon K
Publicado 2014

Dashboard-style interactive plots for RNA-seq analysis are R Markdown ready with Glimma 2.0

por Kariyawasam, Hasaru, Su, Shian, Voogd, Oliver, Ritchie, Matthew E, Law, Charity W
Publicado 2021

Isoform prefiltering improves performance of count-based methods for analysis of differential transcript usage

por Soneson, Charlotte, Matthes, Katarina L., Nowicka, Malgorzata, Law, Charity W., Robinson, Mark D.
Publicado 2016

Easy and efficient ensemble gene set testing with EGSEA

por Alhamdoosh, Monther, Law, Charity W., Tian, Luyi, Sheridan, Julie M., Ng, Milica, Ritchie, Matthew E.
Publicado 2017

A guide to creating design matrices for gene expression experiments

por Law, Charity W., Zeglinski, Kathleen, Dong, Xueyi, Alhamdoosh, Monther, Smyth, Gordon K., Ritchie, Matthew E.
Publicado 2020

Statistical methods for detecting differentially methylated loci and regions

por Robinson, Mark D., Kahraman, Abdullah, Law, Charity W., Lindsay, Helen, Nowicka, Malgorzata, Weber, Lukas M., Zhou, Xiaobei
Publicado 2014

limma powers differential expression analyses for RNA-sequencing and microarray studies

por Ritchie, Matthew E., Phipson, Belinda, Wu, Di, Hu, Yifang, Law, Charity W., Shi, Wei, Smyth, Gordon K.
Publicado 2015

RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR

por Law, Charity W., Alhamdoosh, Monther, Su, Shian, Dong, Xueyi, Tian, Luyi, Smyth, Gordon K., Ritchie, Matthew E.
Publicado 2018

Glimma: interactive graphics for gene expression analysis

por Su, Shian, Law, Charity W, Ah-Cann, Casey, Asselin-Labat, Marie-Liesse, Blewitt, Marnie E, Ritchie, Matthew E
Publicado 2017

Covering all your bases: incorporating intron signal from RNA-seq data

por Lee, Stuart, Zhang, Albert Y, Su, Shian, Ng, Ashley P, Holik, Aliaksei Z, Asselin-Labat, Marie-Liesse, Ritchie, Matthew E, Law, Charity W
Publicado 2020

Modeling group heteroscedasticity in single-cell RNA-seq pseudo-bulk data

por You, Yue, Dong, Xueyi, Wee, Yong Kiat, Maxwell, Mhairi J., Alhamdoosh, Monther, Smyth, Gordon K., Hickey, Peter F., Ritchie, Matthew E., Law, Charity W.
Publicado 2023

Publisher Correction: Modeling group heteroscedasticity in single-cell RNA-seq pseudo-bulk data

por You, Yue, Dong, Xueyi, Wee, Yong Kiat, Maxwell, Mhairi J., Alhamdoosh, Monther, Smyth, Gordon K., Hickey, Peter F., Ritchie, Matthew E., Law, Charity W.
Publicado 2023

RNA-seq mixology: designing realistic control experiments to compare protocols and analysis methods

por Holik, Aliaksei Z., Law, Charity W., Liu, Ruijie, Wang, Zeya, Wang, Wenyi, Ahn, Jaeil, Asselin-Labat, Marie-Liesse, Smyth, Gordon K., Ritchie, Matthew E.
Publicado 2017

The long and the short of it: unlocking nanopore long-read RNA sequencing data with short-read differential expression analysis tools

por Dong, Xueyi, Tian, Luyi, Gouil, Quentin, Kariyawasam, Hasaru, Su, Shian, De Paoli-Iseppi, Ricardo, Prawer, Yair David Joseph, Clark, Michael B, Breslin, Kelsey, Iminitoff, Megan, Blewitt, Marnie E, Law, Charity W, Ritchie, Matthew E
Publicado 2021

Comprehensive characterization of single-cell full-length isoforms in human and mouse with long-read sequencing

por Tian, Luyi, Jabbari, Jafar S., Thijssen, Rachel, Gouil, Quentin, Amarasinghe, Shanika L., Voogd, Oliver, Kariyawasam, Hasaru, Du, Mei R. M., Schuster, Jakob, Wang, Changqing, Su, Shian, Dong, Xueyi, Law, Charity W., Lucattini, Alexis, Prawer, Yair David Joseph, Collar-Fernández, Coralina, Chung, Jin D., Naim, Timur, Chan, Audrey, Ly, Chi Hai, Lynch, Gordon S., Ryall, James G., Anttila, Casey J. A., Peng, Hongke, Anderson, Mary Ann, Flensburg, Christoffer, Majewski, Ian, Roberts, Andrew W., Huang, David C. S., Clark, Michael B., Ritchie, Matthew E.
Publicado 2021