diff --git a/README.md b/README.md index 42796cc..22f189a 100644 --- a/README.md +++ b/README.md @@ -14,7 +14,9 @@ python3 star_caller.py --manifest MANIFEST_FILE \ --threads NUMBER_THREADS ``` The manifest is a text file in which each line should list the absolute path to an input BAM/CRAM file. -For CRAM input, it’s suggested to provide the path to the reference fasta file with `--reference` in the command. +For CRAM input, it’s suggested to provide the path to the reference fasta file with `--reference` in the command. + +Cyrius can now be installed with `pip install cyrius` and run with `cyrius -h`, with the same parameters as listed above. ## Interpreting the output