Transcribe a document as it is written. Do not make corrections no matter how “wrong” it looks. The letters sic in buckets[sic] can be used for any error that is obvious (such as the use of “buckets” instead of “brackets”). Separate from the transcribe annotations can be made if necessary. Make it clear where the transcription ends and where the annotation begins.
Then analyze. I prefer to use [begin transcription] document transcription here [end transcription] to make it clear what is what.