From 3fcd89de4e31d462b585c1e43ffe2057b0577746 Mon Sep 17 00:00:00 2001 From: teng-gao Date: Mon, 13 Feb 2023 22:54:23 -0500 Subject: [PATCH] adding Ruslan --- DESCRIPTION | 2 +- docs/404.html | 2 +- docs/LICENSE-text.html | 2 +- docs/articles/index.html | 2 +- docs/articles/mouse.html | 2 +- docs/articles/numbat.html | 4 ++-- docs/articles/results.html | 2 +- .../figure-html/unnamed-chunk-8-1.png | Bin 62543 -> 62547 bytes docs/articles/spatial-rna.html | 2 +- docs/authors.html | 6 +++++- docs/index.html | 3 ++- docs/news/index.html | 2 +- docs/pkgdown.yml | 2 +- docs/reference/Modes.html | 2 +- docs/reference/Numbat.html | 2 +- docs/reference/acen_hg19.html | 2 +- docs/reference/acen_hg38.html | 2 +- docs/reference/aggregate_counts.html | 2 +- docs/reference/analyze_bulk.html | 2 +- docs/reference/annot_consensus.html | 2 +- docs/reference/annot_haplo_segs.html | 2 +- docs/reference/annot_ref.html | 2 +- docs/reference/annot_segs.html | 2 +- docs/reference/annot_theta_roll.html | 2 +- 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+- docs/search.json | 2 +- 146 files changed, 151 insertions(+), 146 deletions(-) diff --git a/DESCRIPTION b/DESCRIPTION index 382ccbf0..1e7ed397 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -2,7 +2,7 @@ Package: numbat Title: Haplotype-Aware CNV Analysis from scRNA-Seq URL: https://github.com/kharchenkolab/numbat Version: 1.2.2 -Authors@R: c(person("Teng","Gao", email="tgao@g.harvard.edu", role=c("cre", "aut")), person("Hirak", "Sarkar", email="hirak_sarkar@hms.harvard.edu", role="aut"), person("Evan", "Biederstedt", email="evan.biederstedt@gmail.com", role="aut"), person("Peter", "Kharchenko", email = "peter_kharchenko@hms.harvard.edu", role = "aut")) +Authors@R: c(person("Teng","Gao", email="tgao@g.harvard.edu", role=c("cre", "aut")), person("Ruslan", "Soldatov", email="soldatr@mskcc.org", role="aut"), person("Hirak", "Sarkar", email="hirak_sarkar@hms.harvard.edu", role="aut"), person("Evan", "Biederstedt", email="evan.biederstedt@gmail.com", role="aut"), person("Peter", "Kharchenko", email = "peter_kharchenko@hms.harvard.edu", role = "aut")) Description: A computational method that infers copy number variations (CNVs) in cancer scRNA-seq data and reconstructs the tumor phylogeny. 'numbat' integrates signals from gene expression, allelic ratio, and population haplotype structures to accurately infer allele-specific CNVs in single cells and reconstruct their lineage relationship. 'numbat' can be used to: 1. detect allele-specific copy number variations from single-cells; 2. differentiate tumor versus normal cells in the tumor microenvironment; 3. infer the clonal architecture and evolutionary history of profiled tumors. 'numbat' does not require tumor/normal-paired DNA or genotype data, but operates solely on the donor scRNA-data data (for example, 10x Cell Ranger output). Additional examples and documentations are available at . For details on the method please see Gao et al. Nature Biotechnology (2022) . License: MIT + file LICENSE Encoding: UTF-8 diff --git a/docs/404.html b/docs/404.html index 6837feb0..7c109991 100644 --- a/docs/404.html +++ b/docs/404.html @@ -90,7 +90,7 @@