From 0490d64a18e26a48c1c8acfd11ab6dab74af010d Mon Sep 17 00:00:00 2001 From: Teng Gao Date: Mon, 22 Mar 2021 18:04:12 -0400 Subject: [PATCH 1/6] Update README.md --- README.md | 3 +++ 1 file changed, 3 insertions(+) diff --git a/README.md b/README.md index 056a0b7..a8cf421 100644 --- a/README.md +++ b/README.md @@ -18,6 +18,9 @@ Code and Data for [Gao et al. Nature Communications 2021](https://www.nature.com ``` # Analysis notebooks An interactive jupyter notebook is provided to reproduce the analyses in the paper. First install [Jupyter](https://jupyter.org/) and then launch the notebook [ch_cnv_figures.ipynb](https://github.com/papaemmelab/Gao_NC_CH/blob/main/notebooks/ch_cnv_figures.ipynb). +## Correction +The confidence level of confidence intervals (as specified in the figure legends) in Figure 1f, Figure 2b-c, Supplementary Figure 9b, and Supplementary Figure 13 are 90% instead of 95%. No claims in the main or supplementary text are affected. + # FACETS-CH algorithm Code to implement the FACETS-CH algorithm is provided here under the [facets-ch](https://github.com/papaemmelab/Gao_NC_CH/tree/main/facets-ch) subfolder. From 8f192cfc45015f7e2f43cf791646385cc8999a3b Mon Sep 17 00:00:00 2001 From: Teng Gao Date: Mon, 22 Mar 2021 18:05:00 -0400 Subject: [PATCH 2/6] Update README.md --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index a8cf421..a4f23b5 100644 --- a/README.md +++ b/README.md @@ -18,7 +18,7 @@ Code and Data for [Gao et al. Nature Communications 2021](https://www.nature.com ``` # Analysis notebooks An interactive jupyter notebook is provided to reproduce the analyses in the paper. First install [Jupyter](https://jupyter.org/) and then launch the notebook [ch_cnv_figures.ipynb](https://github.com/papaemmelab/Gao_NC_CH/blob/main/notebooks/ch_cnv_figures.ipynb). -## Correction +## Correction (03/22/2021) The confidence level of confidence intervals (as specified in the figure legends) in Figure 1f, Figure 2b-c, Supplementary Figure 9b, and Supplementary Figure 13 are 90% instead of 95%. No claims in the main or supplementary text are affected. From c5f749b103b72014a0eb99e3389e5328b4bbbe84 Mon Sep 17 00:00:00 2001 From: Teng Gao Date: Mon, 22 Mar 2021 18:05:22 -0400 Subject: [PATCH 3/6] Update README.md --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index a4f23b5..4d02648 100644 --- a/README.md +++ b/README.md @@ -19,7 +19,7 @@ Code and Data for [Gao et al. Nature Communications 2021](https://www.nature.com # Analysis notebooks An interactive jupyter notebook is provided to reproduce the analyses in the paper. First install [Jupyter](https://jupyter.org/) and then launch the notebook [ch_cnv_figures.ipynb](https://github.com/papaemmelab/Gao_NC_CH/blob/main/notebooks/ch_cnv_figures.ipynb). ## Correction (03/22/2021) -The confidence level of confidence intervals (as specified in the figure legends) in Figure 1f, Figure 2b-c, Supplementary Figure 9b, and Supplementary Figure 13 are 90% instead of 95%. No claims in the main or supplementary text are affected. +The confidence level of confidence intervals (as specified in the figure legends) in Figure 1f, Figure 2b-c, Supplementary Figure 9b, and Supplementary Figure 13 are 90% instead of 95%. No conclusions in the main or supplementary text are affected. # FACETS-CH algorithm From c43550db81e75c6204341af7216f5d66987370ab Mon Sep 17 00:00:00 2001 From: Teng Gao Date: Mon, 22 Mar 2021 19:03:28 -0400 Subject: [PATCH 4/6] Update README.md --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index 4d02648..65b728c 100644 --- a/README.md +++ b/README.md @@ -19,7 +19,7 @@ Code and Data for [Gao et al. Nature Communications 2021](https://www.nature.com # Analysis notebooks An interactive jupyter notebook is provided to reproduce the analyses in the paper. First install [Jupyter](https://jupyter.org/) and then launch the notebook [ch_cnv_figures.ipynb](https://github.com/papaemmelab/Gao_NC_CH/blob/main/notebooks/ch_cnv_figures.ipynb). ## Correction (03/22/2021) -The confidence level of confidence intervals (as specified in the figure legends) in Figure 1f, Figure 2b-c, Supplementary Figure 9b, and Supplementary Figure 13 are 90% instead of 95%. No conclusions in the main or supplementary text are affected. +The confidence level of confidence intervals (as specified in the figure legends) in Figure 1f, Figure 2b-c, Supplementary Figure 9b, and Supplementary Figure 13 are 90% instead of 95%. No conclusions in the main or supplementary text are affected. Code are added in the notebook for constructing 95% confidence intervals using `binom.test()`. # FACETS-CH algorithm From 15a3869549829177f6dda7faf9635f1fa31b8bb3 Mon Sep 17 00:00:00 2001 From: Teng Gao Date: Mon, 22 Mar 2021 19:04:04 -0400 Subject: [PATCH 5/6] Update README.md --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index 65b728c..e31fed6 100644 --- a/README.md +++ b/README.md @@ -19,7 +19,7 @@ Code and Data for [Gao et al. Nature Communications 2021](https://www.nature.com # Analysis notebooks An interactive jupyter notebook is provided to reproduce the analyses in the paper. First install [Jupyter](https://jupyter.org/) and then launch the notebook [ch_cnv_figures.ipynb](https://github.com/papaemmelab/Gao_NC_CH/blob/main/notebooks/ch_cnv_figures.ipynb). ## Correction (03/22/2021) -The confidence level of confidence intervals (as specified in the figure legends) in Figure 1f, Figure 2b-c, Supplementary Figure 9b, and Supplementary Figure 13 are 90% instead of 95%. No conclusions in the main or supplementary text are affected. Code are added in the notebook for constructing 95% confidence intervals using `binom.test()`. +The confidence level of confidence intervals (as specified in the figure legends) in Figure 1f, Figure 2b-c, Supplementary Figure 9b, and Supplementary Figure 13 are 90% instead of 95%. No conclusions in the main or supplementary text are affected. Code are added in the notebook for constructing 95% confidence intervals. # FACETS-CH algorithm From c2b17ff87ffa153394951b6b9c686cd4fc9562e9 Mon Sep 17 00:00:00 2001 From: Teng Gao Date: Mon, 22 Mar 2021 19:05:32 -0400 Subject: [PATCH 6/6] Update README.md --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index e31fed6..40f2240 100644 --- a/README.md +++ b/README.md @@ -19,7 +19,7 @@ Code and Data for [Gao et al. Nature Communications 2021](https://www.nature.com # Analysis notebooks An interactive jupyter notebook is provided to reproduce the analyses in the paper. First install [Jupyter](https://jupyter.org/) and then launch the notebook [ch_cnv_figures.ipynb](https://github.com/papaemmelab/Gao_NC_CH/blob/main/notebooks/ch_cnv_figures.ipynb). ## Correction (03/22/2021) -The confidence level of confidence intervals (as specified in the figure legends) in Figure 1f, Figure 2b-c, Supplementary Figure 9b, and Supplementary Figure 13 are 90% instead of 95%. No conclusions in the main or supplementary text are affected. Code are added in the notebook for constructing 95% confidence intervals. +The confidence level of confidence intervals (as specified in the figure legends) in Figure 1f, Figure 2b-c, Supplementary Figure 9b, and Supplementary Figure 13 are 90% instead of 95%. No conclusions in the main or supplementary text are affected. Code are added in the notebook for constructing 95% confidence intervals in the above figures. # FACETS-CH algorithm