# bixbench-cli / bix-3-q4 - taskset: [bixbench-cli](https://harnessreport.com/tasks/bixbench-cli.md) - difficulty: hard - category: computational_biology - language: - runnable from the site: no - agent timeout: 3600s ## Results by harness _none yet_ ## Instruction ``` Here is the question you need to address: <question> Using DESeq2 to conduct differential expression analysis between final blood and baseline blood, dentate gyrus and baseline blood, and dentate gyrus and final blood, how many genes are differentially expressed across all comparisons? </question> Perform data analysis in /workspace/notebook.py to analyze data files in /workspace/ Submit your final answer as a single string with your short answer in /workspace/answer.txt IMPORTANT: Wrap your answer in XML tags <answer> </answer> Example output: ``` echo "<answer>Your concise answer to the question</answer>" > /workspace/answer.txt ``` Remember, the final file should contain all necessary artifacts (plots, tables, print outputs) to solve the task provided. General Guidelines: - Write small to medium-sized chunks for easier debugging. - Check dataframe shapes before printing. Use head() for large dataframes. AVOID USING PLOTS/IMAGES. USE TABLES AND PRINT OUTPUTS INSTEAD AS MUCH AS POSSIBLE. ``` --- Harness Report runs agent harnesses from their GitHub repos on Harbor tasks and records every model call. Every page is also `.md` and `.json`; index: https://harnessreport.com/llms.txt · MCP: https://harnessreport.com/mcp