This is the supporting code repository for my WVU undergrad capstone project "Analysis of AGO2/Musashi protein interactions in mouse photoreceptor cells". The raw data is not yet publicly available, but processed data files past the initial DEseq2 analysis are within this GitHub repo. The raw data should be publicly posted later in 2026.

• Figure 6 (Differentially enriched chimeric-Ago2 eCLIP peaks (Musashi knockout / wild-type) was generated in 0_0_original_stoilov_eCLIP_analysis/difClip.R.
• Figure 10 (Score vs Distance From AGO2 microRNA Seed) was generated in 0_3_stoilov_simulating_AGO2_Msi_crosslinks/AGO-MSI-CLIP-comparing_v2.R.
• Figure 11 (Example Binomial Distribution) was generated in 1_AGO2_motif_analysis/binomial/binomialPlot.R.
• Figure 12 (STREME motif discovery results) is a direct screenshot from 1_AGO2_motif_analysis/STREME outputs/20251205 3-8 motifs.html
• Figure 13 (Preliminary Results: Ratio of Binding in Down-regulated / Not Regulated Sites) was generated in 4_explore_microRNA_levels/1findmicroRNAsinseeds.R.