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Update mutate.md
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lauraluebbert committed May 28, 2024
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Expand Up @@ -21,15 +21,15 @@ Alternatively: Input sequence(s) as a string or list, e.g. 'AGCTAGCT'.

**Required arguments**
`-m` `--mutations`
Path to the csv or tsv file (e.g., 'path/to/mutations.csv') or data frame (DataFrame object) containing information about the mutations in the following format:

| mutation | mut_ID | seq_ID |
|------------------|--------|--------|
| c.2C>T | mut1 | seq1 |
| c.9_13inv | mut2 | seq2 |
| c.9_13inv | mut2 | seq4 |
| c.9_13delinsAAT | mut3 | seq4 |
| ... | ... | ... |
Path to the csv or tsv file (e.g., 'path/to/mutations.csv') or data frame (DataFrame object) containing information about the mutations in the following format (the 'notes' column is not necessary):

| mutation | mut_ID | seq_ID | notes |
|------------------|--------|--------|-|
| c.2C>T | mut1 | seq1 | -> Apply mutation 1 to sequence 1 |
| c.9_13inv | mut2 | seq2 | -> Apply mutation 2 to sequence 2 |
| c.9_13inv | mut2 | seq4 | -> Apply mutation 2 to sequence 4 |
| c.9_13delinsAAT | mut3 | seq4 | -> Apply mutation 3 to sequence 4 |
| ... | ... | ... | |

'mutation' = Column containing the mutations to be performed written in standard mutation annotation
'mut_ID' = Column containing the identifier for each mutation
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