User: loicatraile

gravatar for loicatraile
loicatraile50
Reputation:
50
Status:
New User
Location:
Germany
Last seen:
6 years, 9 months ago
Joined:
7 years, 10 months ago
Email:
l**********@gmail.com

about me

Posts by loicatraile

<prev • 14 results • page 1 of 2 • next >
2
votes
1
answer
2.0k
views
1
answer
What is the lod score of a PAM matrix
... Hi biostars, I was wondering what is the lods score of a PAM matrix and how is calculated? thanks! ...
subtitutionmatrix lod score pam written 6.8 years ago by loicatraile50 • updated 6.8 years ago by promise0
1
vote
1
answer
1.0k
views
1
answer
What Is A Substitutionmatrix Used For?
... Hi biostars! I know that substitution matrices are used to reconstruct evolutionary trees. My question is what roll do they play in the reconstruction (how does it work)? and what are the results in the reconstruction if you use a different matrix? you get another tree? thanks for the reply! ...
written 6.9 years ago by loicatraile50 • updated 6.9 years ago by lkmklsmn930
6
votes
0
answers
1.9k
views
0
answers
Text Editors Doesn´T Display Fasta Or Stockholm Format Correctly
... Hi, I´m trying to display correctly a fasta file but my text editors give some special formatting to it and there are some strange line breaks in the text. I have tried Textedit, Brackets, Sublime Text 2 and TextMate. Does anybody knows of a text editor that can display the formats correctly or ho ...
fasta text written 7.1 years ago by loicatraile50
0
votes
1
answer
1.9k
views
1
answer
Estimate Substitution Matrix With Paml
... Hi all! Does anybody knows how to estimate an amino acido substitution matrix using the PAML software? I´m not getting anywhere.. any suggestions woulds be really apreciated.. thanks! ...
software matrix paml written 7.2 years ago by loicatraile50 • updated 7.2 years ago by Pavel Senin1.9k
0
votes
1
answer
7.4k
views
1
answer
How To Create Pam Or Blossum Matrix (Substitution Matrix)
... Hi guys! I´m looking for a hint or if someone has a recipe on how to compute a PAM or BLOSSUM matrix. I found this link: http://www.biorecipes.com/Dayhoff/code.html coded in Darwin but i found out that the code is most probably wrong because i´m unable to recreate the results that are explained t ...
written 7.5 years ago by loicatraile50 • updated 7.4 years ago by Hamish3.2k
0
votes
1
answer
2.3k
views
1
answers
Comment: C: Comparing Alignments In An Iterative Process With Perl
... Thank you! that solved my problem! :) ...
written 7.6 years ago by loicatraile50
5
votes
1
answer
2.3k
views
1
answer
Comparing Alignments In An Iterative Process With Perl
... Hi people! I have a fasta file with multiple sequence alignments. I´m trying to run my code with 2 alignments at a time and compare each with each. So alignment 1 with 2 runs the code then 1 with 3 and so on (after each comparison the results schould be saved in the same hash). The problem is that ...
perl bioinformatics alignment written 7.6 years ago by loicatraile50 • updated 7.6 years ago by Michael Dondrup48k
0
votes
0
answers
256
views
0
answers
Comment: C: Simple Iteration In A Hash With Perl
... it is related with bioinforamtics.. i just simplifyed the question but in the hash i have alignments and im trying to create a substitutionmatrix in an iteration process as described ...
written 7.6 years ago by loicatraile50
0
votes
1
answer
2.0k
views
1
answers
Comment: C: Protein Count Matrix In Perl
... hi! thank you for your answer... yes i think you are right but how do i replace all the zeros with the numbers i need? i mean if i initialize the matrix like this: my $matrix ={}; for (my $i=0; $i<20;$i++){ for (my $j=0; $j<20;$j++){ $matrix->{$i}->{$j}= 0; } } and i i ...
written 7.7 years ago by loicatraile50
2
votes
1
answer
2.0k
views
1
answer
Protein Count Matrix In Perl
... Hi!, I´m trying to create a 20x20 Count matrix in perl for a Protein alignment. The matrix should be simmetric but im not getting good results. Does anyone knows how to do this right? i have wrote this so far: Here´s my Protein alignment: >EOG50000C|AMELL_prerelease2|GB14042-PA MA------------ ...
perl bioinformatics matrix written 7.7 years ago by loicatraile50 • updated 7.7 years ago by Jordan1.2k

Latest awards to loicatraile

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1764 users visited in the last hour
_