Modify filter count matric to inlcude lower case txid

IGDRion · Dec 10, 2023 · f35d91d · f35d91d
1 parent 35fec34
commit f35d91d
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/bin/filter_gtf_ndr.py b/bin/filter_gtf_ndr.py
@@ -9,7 +9,7 @@ def parse_bambu(line):
 
 def parse_tfkmers(line):
     ids = line[0].split("::")
-    return ids[0], ids[1], line[1]
+    return ids[1], ids[0], line[1]
 
 
 def parse_ndr(csv, origin, th) -> Set[str]:
@@ -39,7 +39,7 @@ def filter_count_matrix(file, transcripts, wr):
     print(next(file), file=wr)
     for line in file:
         line_splitted = line.split("\t")
-        if line_splitted[0].startswith("BambuTx") and line_splitted[0] not in transcripts:
+        if line_splitted[0].startswith("BambuTx") and line_splitted[0].lower() not in transcripts:
             continue
         print(line.rstrip(), file=wr)