MANIFEST

MANIFEST
bin/bcgTree.pl
bin/concatenate_by_header.pl
bin/mm-alignments.pl
bin/plot_matrix.py
bin/extract_essential_genes.sh
lib/bcgTree.pm
LICENSE
README.org
data/essential.hmm
Makefile.PL
t/01_script_compiles.t
t/02_script_runs_without_parameters.t
t/03_script_runs_with_help_requested.t
t/04_error_if_fasta_not_found.t
t/05_error_if_invalid_outdir.t
t/06_rename_fasta_headers.t
t/07_run_hmmsearch.t
t/08_collect_best_hits.t
t/09_run_muscle_and_gblocks.t
t/10_complete_and_concat_alignments.t
t/11_run_raxml.t
t/data/simple.fa
t/data/NC_005966.faa
t/data/NC_014639.faa
t/data/NC_022549.faa
t/data/NC_008253.faa
t/data/NC_016630.faa
t/data/Filifactor_PF002xx.fa
t/data/Escherichia_PF002xx.fa
t/data/Acinetobacter_PF002xx.fa
t/data/README.org
t/expected/TIGR02386.ids
t/expected/simple.renamed_headers.fa
t/expected/full_alignment.concat.fa
t/expected/TIGR01030.aln-gb.comp