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bulkfile-scripts's Introduction

bulkfile-scripts

Scripts useful for working with bulk FlyBase data locally.

Scripts

FASTA

extract_seq_from_fasta.pl - Extract longest, unique, and specific IDs from the FlyBase FASTA files.

GFF

problem_case_filter.pl - Script for removing complicated biological corner cases from GFF files that can sometimes cause issues with various analysis tools.

Assembly

dmel_r5_to_r6_converter.pl - Convert D. melanogaster coordinates from genome assembly release 5 to release 6.

Symbols

symbol_to_id_lookup.py - Script for converting symbols (current or old) into their current FlyBase IDs. This script currently only handles Dmel genes and transcripts but could be easily modified to handle other species or data types.

bulkfile-scripts's People

Contributors

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Watchers

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