There are plenty of software programs facilitating interlinear transcription (e.g. Toolbox, Fieldworks Language Explorer). There's also a number of tools that allow you to work on aligning parallel texts (mostly bitexts, but also some allowing multiple parallel texts) but it seems the options for small projects are much more limited and less user-friendly than is the case with tools for interlinear transcription. (Below I've included a short list of corpus/alignment tools that seem to be the most used / well-known). However, so far I have not found a program that allows an integrated approach, i.e. working on morphological analysis of a text that is already sentence-aligned. I'll first explain my use-case.