sgrna_strands: not implemented

[keiranmraine]

For the sgrna_strands column to be fully useful changes are required in the dual-guide read classification process. At present this is hard coded to expect:

• read 1: 3'-5',
• read 2: 5'-3'

The ##dual-orientation: R2_R1 header item only swaps the order of the sgrna_seqs an isn't intended to handle sequencing direction differences.

The locations anticipated to need expansion are:

pycroquet/pycroquet/dualguide.py

Line 197 in 8d1fd4f

if bt_l.sm.reversed is False and bt_r.sm.reversed is True:

pycroquet/pycroquet/dualguide.py

Line 216 in 8d1fd4f

if bt_l.sm.reversed is False and bt_r.sm.reversed is True:

pycroquet/pycroquet/dualguide.py

Line 229 in 8d1fd4f

if bt_l.sm.reversed:

pycroquet/pycroquet/dualguide.py

Line 247 in 8d1fd4f

if bt_l.sm.reversed:

pycroquet/pycroquet/dualguide.py

Line 253 in 8d1fd4f

if bt_r.sm.reversed:

pycroquet/pycroquet/dualguide.py

Line 271 in 8d1fd4f

if bt_r.sm.reversed:

The state of a guide orientation can be accessed via guide.sgrna_strands[0..1].