search

shane-c-lawson / breseq

Automatically exported from code.google.com/p/breseq
Other
0 stars 0 forks source link

Flexible reference sequence input #24

Closed GoogleCodeExporter closed 8 years ago

GoogleCodeExporter commented 8 years ago 
Wish list:

Transparent input of gene tables, FASTA, GFF, GFF+FASTA, GenBank as reference 
sequences.

Original issue reported on code.google.com by jeffrey....@gmail.com on 19 Sep 2011 at 3:59

GoogleCodeExporter commented 8 years ago 
1. FASTA only reference sequence

2. Autodetect input file type based on first line

3. FASTA file and GFF3 file separately for same ref seq.
3b. correct GFF3 header.
3c. Detect and load Bull feature file format.

4. Improve GFF3parser to add end of line stuff to map

Original comment by jeffrey....@gmail.com on 19 Sep 2011 at 8:58

GoogleCodeExporter commented 8 years ago 
Now takes ant combination of GenBank, GFF3, and FASTA (and Bull format).

Original comment by jeffrey....@gmail.com on 4 Oct 2011 at 2:20