maxquant-proteomics
MaxQuant + Perseus proteomics pipeline: configure and run MaxQuant for label-free quantification (LFQ) and SILAC; parse proteinGroups.txt in Python; filter contaminants/reverse decoys; log2-transform and median-normalize LFQ intensities; impute MNAR missing values; t-test with FDR correction; volcano plot; GO/pathway enrichment. Use Proteome Discoverer for Thermo instrument-native processing; FragPipe/MSFragger for GPU-accelerated database search.
Installation and usage
MaxQuant + Perseus proteomics pipeline: configure and run MaxQuant for label-free quantification (LFQ) and SILAC; parse proteinGroups.txt in Python; filter contaminants/reverse decoys; log2-transform and median-normalize LFQ intensities; impute MNAR missing values; t-test with FDR correction; volcano plot; GO/pathway enrichment. Use Proteome Discoverer for Thermo instrument-native processing; FragPipe/MSFragger for GPU-accelerated database search.
ইনস্টল করার পর, টার্মিনালে নিচের কমান্ড চালিয়ে আপনি এই স্কিল ব্যবহার করতে পারবেন:
skills use maxquant-proteomics