Update README.md

martinjzhang · Apr 13, 2022 · 69a9fb4 · 69a9fb4
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@@ -7,8 +7,12 @@ Read the [documentation](https://martinjzhang.github.io/scDRS/): [installation](
 Check out [instructions](https://github.com/martinjzhang/scDRS/issues/2) for making customized gene sets using MAGMA. 
 
 ### Software version
-- v1.0.1: current version. 
-- [v1.0.0](https://github.com/martinjzhang/scDRS/releases/tag/v1.0.0): stable version used in revision 1. 
+- v1.0.1: current version. Currently identical to `v1.0.0` but may evolve when we incorporate more suggestions.
+- [v1.0.0](https://github.com/martinjzhang/scDRS/releases/tag/v1.0.0): stable version used in revision 1. Results are identical to `v0.1` for binary gene sets. Changes with respect to `v0.1`:
+    -  scDRS command-line interface (CLI) instead of `.py` scripts for calling scDRS in bash, including `scdrs munge-gs`, `scdrs compute-score`, and `scdrs perform-downstream`.
+    -  More efficient in memory use due to the use of sparse matrix throughout the computation.
+    -  Allow the use of quantitative weights.
+    -  New feature `--adj-prop` for adjusting for cell type-proportions.
 - [v0.1](https://github.com/martinjzhang/scDRS/tree/v0.1): stable version used in the initial submission.
 
 
@@ -23,7 +27,7 @@ Check out [instructions](https://github.com/martinjzhang/scDRS/issues/2) for mak
 
 
 ## References
-[Zhang*, Hou*, et al. “Polygenic enrichment distinguishes disease associations of individual cells in single-cell RNA-seq data"](https://www.biorxiv.org/content/10.1101/2021.09.24.461597v2).
+[Zhang*, Hou*, et al. “Polygenic enrichment distinguishes disease associations of individual cells in single-cell RNA-seq data"](https://www.biorxiv.org/content/10.1101/2021.09.24.461597v2), accepted in principle at Nat Genet.
 
 ### Code and data to reproduce results of the paper
 See [scDRS_paper](https://github.com/martinjzhang/scDRS_paper) for more details ([experiments](./experiments) folder is deprecated). Data are at [figshare](https://figshare.com/projects/Single-cell_Disease_Relevance_Score_scDRS_/118902).