def ttest_latex(outfile, lines):
f = open(outfile, 'w')
libcommon.write_doc_start(f)
colnames = ["Index", "Group 1", "Group 2", "p value", "Mean 1 $\pm$ Std 1", "Mean 2 $\pm$ Std 2"]
libcommon.tab_header(f, colnames)
ttest_latex_tab(f, lines)
caption = ''
label = ''
libcommon.tab_closer(f, caption, label)
libcommon.write_doc_end(f)
f.close()
def group_cmp_latex(outfile, lines):
f = open(outfile, 'w')
libcommon.write_doc_start(f)
colnames = ["Category 1", "Category 2", "p value", "Mean 1 $\pm$ Std 1", "Mean 2 $\pm$ Std 2"]
libcommon.tab_header(f, colnames)
group_cmp_latex_tab(f, lines)
caption = ''
label = ''
libcommon.tab_closer(f, caption, label)
libcommon.write_doc_end(f)
f.close()
def trackclone_latex(groups, clone2groups, outfile):
f = open(outfile, 'w')
libcommon.write_doc_start(f)
colnames = ["V", "Sequence", "J"] + groups
colnames = [c.replace('_', "\_") for c in colnames]
libcommon.tab_header(f, colnames)
trackclone_latex_tab(f, clone2groups)
caption = ''
label = ''
libcommon.tab_closer(f, caption, label)
libcommon.write_doc_end(f)
f.close()
def repsize_latex(samples, outfile, avrnames=[]):
f = open(outfile, 'w')
libcommon.write_doc_start(f)
colnames = ["Sample", "Clones", "Reads"]
libcommon.tab_header(f, colnames)
repsize_latex_tab(f, samples, avrnames)
caption = ("Repertoire size summary. Columns: `Sample': sample name, "
+ "`Clones': number of unique clones, `Reads': number of "
+ "reads. Rows: different samples, where the shaded rows "
+ "show the average of statistics of each group.")
label = ''
libcommon.tab_closer(f, caption, label)
libcommon.write_doc_end(f)
f.close()
def table_latex(objs, outfile, colfields, caption='', label='',
listattr=None):
f = open(outfile, 'w')
libcommon.write_doc_start(f)
colnames = ["Sample"] + colfields
colnames = [c.replace('_', '\_') for c in colnames]
libcommon.tab_header(f, colnames)
if listattr: # if want to print an obj attr which is a list
table_latex_tab_list(f, objs, listattr)
else: # print all colfields attr
table_latex_tab(f, objs, colfields)
#caption = "Diversity colfields"
libcommon.tab_closer(f, caption, label)
libcommon.write_doc_end(f)
f.close()