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31 Open 39 Closed
31 Open 39 Closed
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Issues list

Better understand corner case for gappyout
#65 opened Apr 28, 2022 by scapella
@scapella
managing/ignoring warnings
#64 opened Apr 28, 2022 by scapella
Between '-backtrans' and '-nogaps' parameter, Which one to use first?
#63 opened Jan 6, 2022 by kishor2019
Option to remove all ambiguous columns
#57 opened Apr 22, 2020 by vatanparast
Does trimal have a codon alignment option ?
#55 opened Dec 11, 2019 by BenjaminGuinet
trimAl doesn't recognise alignment
#53 opened Jul 30, 2019 by honeyella
5
Complementary functionality doesn't work as expected when using consistency-based methods
#48 opened Mar 24, 2019 by scapella
Removing sequences with manual overlap
#47 opened Jan 10, 2019 by bruceamurphy
3
Redundant asignation on Sequences Matrix = operator
#46 opened Oct 16, 2018 by Vicfero 2.0
1
Compareset ends without reporting when one alignment couldn't be loaded
#42 opened Feb 26, 2018 by Vicfero
removing alignment length to taxon name?
#41 opened Feb 13, 2018 by ghost
1
Improve columns mapping
#35 opened Oct 5, 2017 by scapella
@scapella
readAl / trimAl creates an empty file when trying to output a non-aligned format/alignment to an aligned-format.
#34 opened Aug 4, 2017 by Vicfero
1
BLOSUM45 error
#31 opened May 31, 2017 by DEsalasL
duplicate sequence IDs
#30 opened Apr 29, 2017 by hildebra
Add an option for avoiding dumping any output alignment
#29 opened Nov 17, 2016 by scapella
@scapella
Problem with "n"
#28 opened Nov 16, 2016 by ijulca
Accept stdin as input
#24 opened Nov 8, 2015 by alephreish
@scapella
5
degenerete codes in alignments
#22 opened May 19, 2015 by ijulca
Any plans for multi-threading support in trimAl ?
#21 opened Apr 4, 2015 by tseemann
@scapella
2
statal - alphabet distribution report
#20 opened Apr 4, 2015 by tseemann
@scapella
2
statal - basic report with #seq
#19 opened Apr 4, 2015 by tseemann
@scapella
2
trimAl capital letters
#13 opened Aug 28, 2014 by scapella 2.0
@scapella
Implement support for different genetic codes
#12 opened Aug 28, 2014 by scapella 2.0
@scapella
1
Implement Stockholm format support
#11 opened Aug 1, 2014 by scapella
@scapella
ProTip! Exclude everything labeled bug with -label:bug.