Fix and organize README documentation

[phonchi]

• Fix title casing: "CryoEM" → "Cryo-EM" for consistency
• Fix grammar typo: "Deomnstrate" → "Demonstrate"
• Fix scientific term: "Ab-initial" → "Ab-initio"
• Fix incomplete sentence in damage compensation section
• Fix typo: "Multirefence" → "Multireference"
• Rename duplicate "Resources" subsection to "Additional Resources"
• Standardize TOC anchor links to lowercase for consistency
• Fix grammar: "dark/gain corrected" → "dark/gain correction"
• Improve overall document organization and readability

[gemini-code-assist]

Summary of Changes

Hello @phonchi, I'm Gemini Code Assist¹! I'm currently reviewing this pull request and will post my feedback shortly. In the meantime, here's a summary to help you and other reviewers quickly get up to speed!

This pull request focuses on enhancing the quality and readability of the README.md file. It addresses various inconsistencies, corrects typographical and grammatical errors, and refines scientific terminology. The changes aim to provide a clearer, more accurate, and better-organized resource for users, making the documentation easier to understand and navigate.

Highlights

• Documentation Consistency: Standardized casing for 'Cryo-EM' and ensured consistent lowercase anchor links throughout the Table of Contents for improved navigation.
• Typographical and Grammatical Corrections: Corrected several typos, including 'Deomnstrate' to 'Demonstrate' and 'Multirefence' to 'Multireference', along with grammatical fixes like 'dark/gain corrected' to 'dark/gain correction'.
• Scientific Terminology Accuracy: Updated the scientific term 'Ab-initial' to the correct 'Ab-initio' for enhanced precision in the documentation.
• Content Organization and Clarity: Resolved an incomplete sentence in the 'Damage compensation' section and renamed the duplicate 'Resources' subsection to 'Additional Resources' to improve overall document structure and readability.

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[gemini-code-assist]

Code Review

This pull request introduces several valuable fixes to the README file, including correcting typos, improving grammar, and enhancing consistency in terminology and formatting. These changes significantly improve the quality and readability of the documentation. I've identified one issue where a change to an anchor link in the table of contents will cause it to break, and I have provided a specific comment with a suggestion to resolve it. Overall, this is a great contribution to the project's documentation.

[gemini-code-assist]

This change updates the link text to Cryo-EM for consistency, which is great. However, the anchor link was also changed to #computational-cryo-em-methods, which will now be a broken link. The corresponding document title on line 1 is still # Computational CryoEM Methods, which generates the anchor #computational-cryoem-methods.

To fix this properly, the title on line 1 should also be updated to # Computational Cryo-EM Methods. Since that line is not part of this diff, I'm suggesting a fix that keeps your text change but reverts the anchor change to prevent the broken link.

Suggested change

	- [**Computational Cryo-EM Methods**](#computational-cryo-em-methods)
	- [**Computational Cryo-EM Methods**](#computational-cryoem-methods)