diff --git a/inst/assets/bibliography.bib b/inst/assets/bibliography.bib index fde7a4df..62b1b07a 100644 --- a/inst/assets/bibliography.bib +++ b/inst/assets/bibliography.bib @@ -2307,3 +2307,17 @@ @Manual{Benedetti2024miadash note = {R package version 0.99.0}, url = {https://github.com/microbiome/miaDash}, } + +@article{mangiola2023, + author = {Stefano Mangiola and Alexandra J. Roth-Schulze and Marie Trussart and Enrique Zozaya-Valdés and Mengyao Ma and Zijie Gao and Alan F. Rubin and Terence P. Speed and Heejung Shim and Anthony T. Papenfuss }, + title = {sccomp: Robust differential composition and variability analysis for single-cell data}, + journal = {Proceedings of the National Academy of Sciences}, + volume = {120}, + number = {33}, + pages = {e2203828120}, + year = {2023}, + doi = {10.1073/pnas.2203828120}, + URL = {https://www.pnas.org/doi/abs/10.1073/pnas.2203828120}, + eprint = {https://www.pnas.org/doi/pdf/10.1073/pnas.2203828120}, + } + diff --git a/inst/pages/differential_abundance.qmd b/inst/pages/differential_abundance.qmd index fec06976..fcce8b00 100755 --- a/inst/pages/differential_abundance.qmd +++ b/inst/pages/differential_abundance.qmd @@ -503,12 +503,14 @@ design or data type. Commonly used DAA tools include: - ALDEx2 [@Gloor2016] - ANCOM [@Mandal2015] - ANCOMBC [@ancombc2020] +- BIRDMAn [@Rahman2023] - corncob [@Martin2021] - DACOMP [@Brill2019] - DESeq2 [@Love2014] - eBay [@Liu2020] - edgeR [@Chen2016] - fastANCOM [@fastANCOM2022] +- fido [@Silverman2019] - LDM [@Hu2020] - lefser [@Khlebrodova2021] - limma [@Ritchie2015] @@ -517,9 +519,9 @@ design or data type. Commonly used DAA tools include: - metagenomeSeq [@Paulson2017] - Omnibus [@Omnibus2018] - RAIDA [@Sohn2015] +- sccomp [@mangiola2023] - t-test - Wilcoxon test - ZicoSeq [@Yang2022] - ZINQ [@Ling2021] -- BIRDMAn [@Rahman2023] :::