1. Online decoding
Need audio files to decode.
Example script: https://github.com/kaldi-asr/kaldi/blob/master/egs/wsj/s5/steps/online/nnet3/decode.sh
2. Offline decoding
Need to extract features from audio files and download them to disk. Offline decoding operates from features. compute-mfcc-feats.cc writes features to disk.
Example script: https://github.com/kaldi-asr/kaldi/blob/master/egs/aspire/s5/local/nnet3/decode.sh
When comparing 2 different decoded WER scores, we should compare like with like. From my experience offline decoding produces slightly better WER scores than online decoding.
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