Add example for #162

tanghaibao · May 6, 2020 · cf9f0fb · cf9f0fb
1 parent 9e3f9f9
commit cf9f0fb
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diff --git a/data/compare_gos/i162a.tsv b/data/compare_gos/i162a.tsv
@@ -0,0 +1,4 @@
+Protein \t GO ID \t Function
+X \t GO:0005737 \t cytoplasm
+X \t GO:0048523 \t cytoplasm
+
diff --git a/data/compare_gos/i162b.tsv b/data/compare_gos/i162b.tsv
@@ -0,0 +1,4 @@
+Protein \t GO ID \t Function
+X \t GO:0005737 \t cytoplasm 
+X \t GO:0048518 \t cytoplasm
+
diff --git a/goatools/cli/compare_gos.py b/goatools/cli/compare_gos.py
@@ -17,6 +17,7 @@
  --obo=<file.obo> Ontologies in obo file [default: go-basic.obo].
  --slims=<file.obo> GO slims in obo file [default: goslim_generic.obo].
 
+ --gpad=<file.gpad> Annotations from a gpad file
  --gaf=<file.gaf> Annotations from a gaf file
  --gene2go=<gene2go> Annotations from a gene2go file downloaded from NCBI
 
@@ -175,7 +176,7 @@ def _prt_ver_n_key(self, prt, verbose):
  prt.write('\n# GO Namspaces:\n')
  prt.write('# BP -> Biological Process\n')
  prt.write('# MF -> Molecular Function\n')
- prt.write('# CC -> Cellualr Component\n')
+ prt.write('# CC -> Cellular Component\n')
  if verbose:
  prt.write('\n# Example fields: 5 uGOs 362 47 L04 D04 R04\n')
  prt.write('# N uGOs -> number of user GO IDs under this GO header\n')