LCrossman · LCrossman · Nov 3, 2025 · Oct 16, 2025 · Oct 16, 2025 · Oct 16, 2025
diff --git a/README.md b/README.md
@@ -1,12 +1,11 @@
- <img src="docs/assets/MICROBIO B.svg" width=200em alt="logo" /> 
+<img src="assets/MICROBIO B.svg#gh-light-mode-only" alt="microBioRust logo light mode" width="200">
+<img src="assets/BIO W.png#gh-dark-mode-only" alt="microBioRust logo dark mode" width="200">
 
 [![Docs](https://img.shields.io/badge/docs-mkdocs-blue.svg)](https://lcrossman.github.io/microBioRust/)
 
 ![Crates.io Version](https://img.shields.io/crates/v/microBioRust?style=flat&link=https%3A%2F%2Fcrates.io%2Fcrates%2FmicroBioRust)
 
 
-
-
 ## A Rust bioinformatics crate aimed at Microbial genomics<br>
 
 The aim of this crate is to provide Microbiology friendly Rust functions for bioinformatics.<br>
@@ -16,6 +15,8 @@ The aim of this crate is to provide Microbiology friendly Rust functions for bio
 Some concepts with many thanks to Rust-bio<br>
 Please see the Roadmap for futher details [here](ROADMAP.md)
 
+Check out the [docs here](https://microBioRust.github.io/microBioRust)
+
 To install Rust - please see here [Rust install](https://www.rust-lang.org/tools/install) or with Conda<br>
 If you would like to contribute please follow the [Rust code of conduct](https://www.rust-lang.org/policies/code-of-conduct)
 

diff --git a/ROADMAP.md b/ROADMAP.md
@@ -16,6 +16,7 @@ Integration of common types and parsers such as:
 - [ ] fastq gzipped version parsing
 - [ ] SAM format parser
 - [ ] RPKM output parser
+- [ ] Further RNA-seq transcriptomics analysis
 - [ ] Support for other compressed files such as BAM and CRAM
 - [ ] Writer support for those types
 

diff --git a/assets/BIO W.png b/assets/BIO W.png
diff --git a/docs/assets/MICROBIO B.svg → assets/MICROBIO B.svg b/docs/assets/MICROBIO B.svg → assets/MICROBIO B.svg
diff --git a/docs/assets/attributes_diagram.png b/docs/assets/attributes_diagram.png
diff --git a/docs/assets/pc_specs.png b/docs/assets/pc_specs.png
diff --git a/docs/assets/records_diagram.pdf b/docs/assets/records_diagram.pdf
diff --git a/docs/assets/records_diagram.png b/docs/assets/records_diagram.png
diff --git a/docs/assets/system_model.png b/docs/assets/system_model.png
diff --git a/docs/assets/window_code.png b/docs/assets/window_code.png
diff --git a/docs/formats_and_parsing.md b/docs/formats_and_parsing.md
diff --git a/docs/formats_and_parsing.md~ b/docs/formats_and_parsing.md~
diff --git a/docs/index.md b/docs/index.md
diff --git a/docs/installation.md b/docs/installation.md
diff --git a/docs/stylesheets/extra.css b/docs/stylesheets/extra.css