Dear All,
I am looking for software, preferably freeware for my bioinformatics work.
Briefly, my work begin after DNA sequencing where I align the forward and reverse sequenced together based on the chromatogram and perform manual alignment when there is any ambiguous. Finally I will export the consensus (based on the quality of chromatogram) for further work.
Geneious works pretty easy for me to work but however my trial version is getting expired. I was wondering if there are any program which could work the same way.
I tried CLC sequence viewer but however it doesn't shows the quality of the chromatogram. I heard about NTI vector but is not free.
Any suggestions?
Thanks.
Adrian
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7 replies to this topic
#1
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Legendary Graduate Beggar
Posted 12 October 2010 - 05:43 PM
Expecting the world to treat you fairly because you are a good person is like expecting the lion not to attack you because you are a vegetarian.
..."best of our knowledge, as far as we know this had never been reported before, though I can't possible read all the published journals on earth, but by perform thorough search in google, the keywords did not match any documents"...
"what doesn’t kill you, makes you stronger"---Goddess Casandra reminds me to be strong
"It's all just DNA. Do it."---phage434
..."best of our knowledge, as far as we know this had never been reported before, though I can't possible read all the published journals on earth, but by perform thorough search in google, the keywords did not match any documents"...
"what doesn’t kill you, makes you stronger"---Goddess Casandra reminds me to be strong
"It's all just DNA. Do it."---phage434
#2
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an elder
Posted 13 October 2010 - 09:43 AM
you can try codoncode aligner.
talent does what it can
genius does what it must
i do what i get paid to do
genius does what it must
i do what i get paid to do
#3
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Legendary Graduate Beggar
Posted 13 October 2010 - 04:19 PM
Thanks mdfenko, now I'm downloading it and try out...
Anyone uses any other "free" program?
Anyone uses any other "free" program?
Expecting the world to treat you fairly because you are a good person is like expecting the lion not to attack you because you are a vegetarian.
..."best of our knowledge, as far as we know this had never been reported before, though I can't possible read all the published journals on earth, but by perform thorough search in google, the keywords did not match any documents"...
"what doesn’t kill you, makes you stronger"---Goddess Casandra reminds me to be strong
"It's all just DNA. Do it."---phage434
..."best of our knowledge, as far as we know this had never been reported before, though I can't possible read all the published journals on earth, but by perform thorough search in google, the keywords did not match any documents"...
"what doesn’t kill you, makes you stronger"---Goddess Casandra reminds me to be strong
"It's all just DNA. Do it."---phage434
#4
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member
Posted 21 October 2010 - 01:00 PM
CodonCode Aligner does exactly what you need to do. Unfortunately it is not free. If you familiar with Unix, there is a software combiner, Phred, Phrap, and Consed. They do exactly what CondonCode Aligner does in window system.
#5
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an elder
Posted 22 October 2010 - 05:58 AM
there's also the staden package.
talent does what it can
genius does what it must
i do what i get paid to do
genius does what it must
i do what i get paid to do
#6
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Legendary Graduate Beggar
Posted 25 October 2010 - 09:17 AM
Hmn... staden package is interesting, but then no choice but I have to learn and install unix system...
Anyone knows ss there any shortcut or tutorial to make it (staden etc) usable in windows?
Thanks.
Anyone knows ss there any shortcut or tutorial to make it (staden etc) usable in windows?
Thanks.
Expecting the world to treat you fairly because you are a good person is like expecting the lion not to attack you because you are a vegetarian.
..."best of our knowledge, as far as we know this had never been reported before, though I can't possible read all the published journals on earth, but by perform thorough search in google, the keywords did not match any documents"...
"what doesn’t kill you, makes you stronger"---Goddess Casandra reminds me to be strong
"It's all just DNA. Do it."---phage434
..."best of our knowledge, as far as we know this had never been reported before, though I can't possible read all the published journals on earth, but by perform thorough search in google, the keywords did not match any documents"...
"what doesn’t kill you, makes you stronger"---Goddess Casandra reminds me to be strong
"It's all just DNA. Do it."---phage434
#7
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an elder
Posted 25 October 2010 - 09:53 AM
the latest windows installer version of the staden package is 1.7.0.
the author will eventually prepare an windows installer for the latest version.
the author will eventually prepare an windows installer for the latest version.
Edited by mdfenko, 25 October 2010 - 09:54 AM.
talent does what it can
genius does what it must
i do what i get paid to do
genius does what it must
i do what i get paid to do
#8
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Legendary Graduate Beggar
Posted 25 October 2010 - 10:01 AM
Hi mdfenko.
Thanks for your reply.
I just got the link and is now downloading the software.
Cheers
Adrian
Thanks for your reply.
I just got the link and is now downloading the software.
CheersAdrian
Expecting the world to treat you fairly because you are a good person is like expecting the lion not to attack you because you are a vegetarian.
..."best of our knowledge, as far as we know this had never been reported before, though I can't possible read all the published journals on earth, but by perform thorough search in google, the keywords did not match any documents"...
"what doesn’t kill you, makes you stronger"---Goddess Casandra reminds me to be strong
"It's all just DNA. Do it."---phage434
..."best of our knowledge, as far as we know this had never been reported before, though I can't possible read all the published journals on earth, but by perform thorough search in google, the keywords did not match any documents"...
"what doesn’t kill you, makes you stronger"---Goddess Casandra reminds me to be strong
"It's all just DNA. Do it."---phage434
