FCHR - is a manual transaction to clear checks. If you run this t.code, you will be required to enter the check numbers, dates and Amount manually Where as FCKR is a automatic T.code to clear the bank checks. User will be required to upload the file and simply execution will clear the checks. The file has certain format which SAP acccepts such as should contain header and line item data with certain spaces.
Let me know if this makes sense. I can send you the file format that I used for my project.
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