lorenzo-rovigatti tacoxDNA issues

lorenzo-rovigatti / tacoxDNA

A collection of tools for DNA modelling

http://tacoxdna.sissa.it/

GNU General Public License v3.0

17 stars 21 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

Conversion OxDNA → PDB not working with new topology format and scripting interface

#44 Lucandia closed 1 month ago
4
oxDNA to PDB timeout

#43 TorEriksson opened 3 months ago
1
Cadnano ox dna mapping sd 623

#42 tgfrancesco closed 6 months ago
0
Updated deprecated syntax

#41 ohenrich closed 1 year ago
0
Bug fix: open file in "wb" mode when print_virt2nuc in `cadnano_oxDNA.py`

#40 RodenLuo closed 2 years ago
0
support scadnano import

#39 dave-doty closed 2 years ago
8
Unphysical stretched bond after coarse-graining

#38 swapnilbaral-git closed 2 years ago
5
Length of an OxDNA unit

#37 thenlevy closed 2 years ago
2
Problem in sequence adding for CaDNAno --> OxDNA conversion

#36 Prateek1410 closed 2 years ago
1
oxDNA_PDB.py grooving

#35 elija-feigl closed 2 years ago
1
oxDNA_PDB.py: RMSF data

#34 elija-feigl closed 3 years ago
0
A problem when convert oxDNA file into pdb file

#33 HollandDove closed 2 years ago
1
Read NUMBER OF ATOMS and BOX BOUNDS at every checkpoint

#32 ohenrich closed 3 years ago
0
Read NUMBER OF ATOMS and BOX BOUNDS at every checkpoint

#31 ohenrich closed 3 years ago
9
Add oxView output option to tiamat script

#30 Akodiat closed 3 years ago
1
Modified requirement to >= 8 columns

#29 ohenrich closed 3 years ago
1
Modified requirement to >= 8 columns

#28 ohenrich closed 3 years ago
0
Modified requirement to >= 8 columns

#27 ohenrich closed 3 years ago
2
Fix old python2 print in rpoly_oxDNA.py

#26 Akodiat closed 3 years ago
3
Add oxView output option to rpoly script

#25 Akodiat closed 3 years ago
0
oxDNA to pdb conversion for looped structures

#24 FionaSander closed 3 years ago
4
Add oxView output option to cadnano script

#23 Akodiat closed 3 years ago
2
Bugfix for issue #14

#22 mckwxp closed 3 years ago
3
Python2 version

#21 ohenrich closed 4 years ago
3
Generalisation for unique base pairing (LAMMPS ntype > 4)

#20 ohenrich closed 4 years ago
3
LAMMPS trajectory processing

#19 ohenrich closed 4 years ago
4
Fixed minor bug in 'correct_for_large_boxes'

#18 mattaq31 closed 4 years ago
0
vHelix_oxDNA.py changes G in C and vice versa

#17 VinceCar closed 4 years ago
2
Incorrectly labeled flag in the README description of cadnano_oxDNA.py

#16 jcalumba closed 4 years ago
1
vHelix to oxDNA(beta)

#15 asdxzsa closed 4 years ago
1
skip: unrecoverably mismatched region length

#14 elija-feigl closed 3 years ago
1
Allow uracil in pdb converter

#13 Akodiat closed 5 years ago
1
Cannot set sequence in cadnano_oxDNA.py

#12 FerdinandoR opened 5 years ago
2
Add files via upload

#11 bensonbits closed 5 years ago
0
Tiamat converter did not work for the attached file

#10 ErikPoppleton closed 5 years ago
3
Problems with open chain

#9 antonio-suma closed 5 years ago
0
parallel vectors diet on XYZ

#8 antonio-suma closed 5 years ago
1
oxDNA CUDA backend bug when filling cells

#7 khaotik closed 5 years ago
1
Python script filenames should not contain dash characters ("-")

#6 lorenzo-rovigatti closed 6 years ago
0
The rule for ACGT and numbers is different in oxdna suite and lammps

#5 antonio-suma closed 6 years ago
1
check TW-WR value generated from xyz

#4 antonio-suma closed 1 year ago
0
lammps checks

#3 antonio-suma closed 1 year ago
0
The writhe-computing function doesn't work for very aligned strands

#2 lorenzo-rovigatti closed 1 year ago
0
add to xyz to oxdna single strand option

#1 antonio-suma closed 7 years ago
1