Issues · solgenomics/Bio-GenomeUpdate · GitHub

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Reimplement fasta parsers with Bioperl

#64

· suryasaha opened

on Oct 22, 2019

script to parse SL3.0 chrs using SL2.93 TPF files and extract contigs

#63

· suryasaha opened

on Feb 12, 2017

Refactor ACE file code out of place_bacs.pl into separate pre-processing script

#55

· suryasaha opened

on Aug 8, 2015

Solo BAC end alignments are not handled correctly in get_tpf_sp_tp_with_bacs_inserted_in_sequences_and_gaps

#54

· suryasaha opened

on Jul 16, 2015

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Singleton BACs should be inserted in the order of occurence in the filtered group_coords file

#53

· suryasaha opened

on Jul 10, 2015

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Generate trim files for TPF in NCBI GRC format

#45

· suryasaha opened

on May 11, 2015

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Add test routine that processes a test ACE file from phrap (process_bac_assembly.pl)

#44

· suryasaha opened

on May 7, 2015

Fix add_contig_to_scaffold() to work with test ACE object (wrong aligned coordinates reported) and ACE files from phrap. (process_bac_assembly.pl)

#43

· suryasaha opened

on May 7, 2015

Fix contig_mismatch() to work with ACE files from phrap. (process_bac_assembly.pl)

#42

· suryasaha opened

on May 7, 2015

Write a LOG file with Contig name and accessions of member BACs (process_bac_assembly.pl)

#41

· suryasaha opened

on May 7, 2015

Upgrade Bio::GenomeUpdate::TPF to TPF v1.8

#29

· suryasaha opened

on Apr 14, 2015

Need script to identify BACs with source chromosomes that align to other chrs

#25

· suryasaha opened

on Mar 27, 2015