|
|
f03928c679
|
Committing minor comments before merging branch with master
|
2017-07-06 10:56:39 +02:00 |
|
|
|
e524041013
|
Views: Files for unfinished views now have the extension
'.obiview_unfinished', renamed to '.obiview' when the view is finished.
|
2017-02-07 17:16:09 +01:00 |
|
|
|
5c50e5b378
|
Embryo of code for openMP parallelization of LCS alignment but
deactivated for now because can't make it compile with cython/clang
|
2016-12-20 11:46:58 +01:00 |
|
|
|
d99447c12b
|
C function for LCS alignment of two columns, and optimized and fixed
line count bug in function to align one column
|
2016-12-16 19:39:02 +01:00 |
|
|
|
9b24818fe2
|
Refactored alignment code for minimum redundancy between the function
that aligns 1 column and the function that aligns 2 columns
|
2016-12-13 17:18:12 +01:00 |
|
|
|
8afb1644e9
|
Alignment: API rework. 'obi align' is now 'obi lcs', and the results are
now written to columns automatically created in the output view, all
optimally handled at the C level.
|
2016-12-12 11:58:59 +01:00 |
|
|
|
6f6099687d
|
Sequence alignment: if no sequence column is given and the view has the
type NUC_SEQS_VIEW, the default sequence column is aligned
|
2016-11-29 16:52:41 +01:00 |
|
|
|
98d0849653
|
Sequence alignment: added the possibility to specify the index of the
sequences to align in a column containing multiple sequences per line (C
level for now)
|
2016-11-29 16:15:02 +01:00 |
|
|
|
5fb025f310
|
When aligning, it is now quickly checked whether the sequences are
identical using their indexes
|
2016-11-28 11:39:29 +01:00 |
|
|
|
70c49e214a
|
Added the kmer filter to LCS alignments, and now obiblobs containing
encoded sequences are directly put in int16_t arrays for the alignment
|
2016-11-18 16:29:28 +01:00 |
|
|
|
2aaa87edcc
|
1st version of obi align command and reworked functions that handle
column alignment
|
2016-08-10 14:51:02 +02:00 |
|
|
|
ad2af0b512
|
Some comments updated
|
2016-06-16 11:26:54 +02:00 |
|
|
|
b3c47809da
|
First version of alignment functions (imported from suma* programs)
|
2016-05-11 16:36:23 +02:00 |
|
