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Commit ae4d3293 authored by Hugo Madge Leon's avatar Hugo Madge Leon
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changes to README

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......@@ -11,10 +11,16 @@ As a whole project, we implemented a procedure for sampling reads from mRNA sequ
# Usage
Input:
- fasta_file
- counts_file
- sep
CLI arguments:
- fasta (required): Path to FASTA file with cDNA sequences
- counts (required): Path to CSV/TSV file with sequence counts
- output (required): Output file path
- mean: Mean fragment length (default: 300)
- std: Standard deviation fragment length (default: 60)
- size: Chunk size for batch processing (default: 10000)
- sep: Sequence counts file separator (default: ",")
"""Takes as input FASTA file of cDNA sequences, a CSV/TSV with sequence counts, and mean and std. dev. of fragment lengths. Outputs most terminal fragment (within desired length range) for each sequence."""
Output:
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