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python-biopython  1.60
Namespaces | Functions | Variables
test_AlignIO.py File Reference

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Namespaces

namespace  test_AlignIO

Functions

def test_AlignIO.str_summary
def test_AlignIO.alignment_summary
def test_AlignIO.check_simple_write_read
def test_AlignIO.simple_alignment_comparison
def test_AlignIO.check_phylip_reject_duplicate

Variables

tuple test_AlignIO.test_write_read_alignment_formats = sorted(AlignIO._FormatToWriter)
 test_AlignIO.test_write_read_align_with_seq_count = test_write_read_alignment_formats\
list test_AlignIO.test_files
tuple test_AlignIO.handle = StringIO()
tuple test_AlignIO.alignments = list(AlignIO.parse(handle, t_format))
tuple test_AlignIO.list_of_records = list(AlignIO.read(open("Clustalw/opuntia.aln"),"clustal"))
list test_AlignIO.alignments2 = []
list test_AlignIO.alignments3 = []
tuple test_AlignIO.seq_iterator = AlignIO.parse(handle=open(t_filename,"r"), format=t_format)
tuple test_AlignIO.record = seq_iterator.next()
list test_AlignIO.alignments4 = [record]
list test_AlignIO.alignments5 = [record]
tuple test_AlignIO.alignment = AlignIO.read(handle=open(t_filename), format=t_format)
tuple test_AlignIO.summary = AlignInfo.SummaryInfo(alignment)
tuple test_AlignIO.dumb_consensus = summary.dumb_consensus()
tuple test_AlignIO.pssm = summary.pos_specific_score_matrix()
tuple test_AlignIO.rep_dict = summary.replacement_dictionary()
tuple test_AlignIO.info_content = summary.information_content()
tuple test_AlignIO.data = open(t_filename,"r")