PETfold
v2.2 - release from Sep 19, 2023, last modified at Sep 19, 2023
| NEWS: | - fix few memory leaks |
| - fix option --settree: ML tree is no longer calculated if tree is given; labels starting with digits are now allowed | |
| - return length-normalized ensemble diversity | |
| - update typedef struct definition to make compatible with gcc (Debian 10.2.1-6) 10.2.1 20210110 | |
| - fix access of unallocated memory during parsing of some input trees |
PETfold
v2.1 - release from Sep 13, 2017, last modified at Sep 13, 2017
| NEWS: | - change Makefile such that ViennaRNA Package CFLAGS and LDFLAGS are retrieved from pkg-config instead of hard coding them (thank Ronny L) |
| - fix invalid access to phyl->root->child->brother after releasing memory of phyl->root (thank Ronny L) | |
| - fix several compilation warnings |
PETfold
v2.0 - release from May 20, 2013, last modified at May 20, 2013
| NEWS: | - first stable C version using Vienna RNA Package library and Pfold library |
| - includes PETcofold v3.2 source code | |
| - check for valid alignment as input (sequences of same length) | |
| - PET reliabilities are returned including gap-columns (parameter --ppfile) | |
| - reads PPfold calculated reliabilities from STDIN (parameter --ppfold) to replace slow Pfold calculations for large alignments |
PETfold
v2.0pre - pre-release from Nov 3, 2011, last modified at Nov 3, 2011
| NEWS: | - C version using Vienna RNA Package library and Pfold library |
| - increases the speed by a factor of 3 | |
| - alternative structures found by structure sampling |
PETfold
v1.1 - release from Mar 10, 2011, last modified at Mar 24, 2011
| NEWS: | - RNAfold call: option -d2 for dangling ends |
| - RNAfold call: constraint string represents specific base pairs as '()' instead of '<>' | |
| - RNAfold call: gap-free base positions are only constrained as base paired when pairing partner isn't a gap | |
| - Pfold call: gap limit is set; in v1.0 gap limit was always 0.75 |
PETfold v1.0 - release from Feb 13, 2008, last modified at Dec 21, 2008
A manual of the standalone PETfold program can be found here (Linux).