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This project contains short Perl scripts that I have written to help in genome assembly. The are useful for filtering illumina reads, merging paired-end files, sorting assembler outputs (contigs), and searching contig lists using blast.

These scipts were written for my needs, thus they may lack descriptions and may need modification for your use. Nor can I guarantee that they work correctly. However, I am working on making them more universal in application and welcome any suggestions.

You can download file releases of perl scripts project from List of release files

List of release files

File/Folder NameFile TypeSizeDateDownload Count
Latest 5 files
README.txttext/plain; charset=us-ascii0.5 KB2013-01-24 19:220
make_pe_match_separate_v2.pltext/x-perl; charset=us-ascii2.2 KB2013-01-24 19:220
fix_maq_output.pltext/x-perl; charset=us-ascii0.4 KB2012-05-09 21:001
prodigal2tab.pltext/x-perl; charset=us-ascii1.2 KB2012-04-27 23:460
blast_summary.pltext/x-perl; charset=us-ascii1.2 KB2012-03-08 19:500
All Files
README.txttext/plain; charset=us-ascii0.5 KB2013-01-24 19:220
make_pe_match_separate_v2.pltext/x-perl; charset=us-ascii2.2 KB2013-01-24 19:220
fix_maq_output.pltext/x-perl; charset=us-ascii0.4 KB2012-05-09 21:001
prodigal2tab.pltext/x-perl; charset=us-ascii1.2 KB2012-04-27 23:460
blast_summary.pltext/x-perl; charset=us-ascii1.2 KB2012-03-08 19:500
find_large_v2.pltext/x-perl; charset=us-ascii1.0 KB2012-03-06 18:540
gc_sort.pltext/x-perl; charset=us-ascii1.7 KB2012-03-02 23:181
gccalc.pltext/x-perl; charset=us-ascii1.4 KB2012-03-01 16:552
parse_blast_summary.pltext/x-perl; charset=us-ascii2.6 KB2012-02-17 22:570
find_large.pltext/x-perl; charset=us-ascii1.5 KB2012-02-14 19:030
make_pe_match_separate.pltext/x-perl; charset=us-ascii2.5 KB2012-02-14 19:030
get_contig.pltext/x-perl; charset=us-ascii0.7 KB2012-02-14 19:032


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