docs: fix markdown linting and broken links (#5401)

evaluation/benchmarks/biocoder/README.md

@@ -4,13 +4,14 @@ Implements evaluation of agents on BioCoder from the BioCoder benchmark introduc
 
 ## Setup Environment and LLM Configuration
 
-Please follow instruction [here](../README.md#setup) to setup your local development environment and LLM.
+Please follow instruction [here](../../README.md#setup) to setup your local development environment and LLM.
 
 ## BioCoder Docker Image
 
 In the openhands branch of the Biocoder repository, we have slightly modified our original Docker image to work with the OpenHands environment. In the Docker image are testing scripts (`/testing/start_test_openhands.py` and aux files in `/testing_files/`) to assist with evaluation. Additionally, we have installed all dependencies, including OpenJDK, mamba (with Python 3.6), and many system libraries. Notably, we have **not** packaged all repositories into the image, so they are downloaded at runtime.
 
 **Before first execution, pull our Docker image with the following command**
+
 ```bash
 docker pull public.ecr.aws/i5g0m1f6/eval_biocoder:v1.0
 ```
@@ -19,7 +20,6 @@ To reproduce this image, please see the Dockerfile_Openopenhands in the `biocode
 
 ## Start the evaluation
 
-
 ```bash
 ./evaluation/benchmarks/biocoder/scripts/run_infer.sh [model_config] [git-version] [agent] [eval_limit]
 ```
@@ -47,7 +47,8 @@ with current OpenHands version, then your command would be:
 ```
 
 ## Reference
-```
+
+```bibtex
 @misc{tang2024biocoder,
       title={BioCoder: A Benchmark for Bioinformatics Code Generation with Large Language Models},
       author={Xiangru Tang and Bill Qian and Rick Gao and Jiakang Chen and Xinyun Chen and Mark Gerstein},