Hi everyone! I have a set of demultiplexed fungal ITS1 reads, and I'd like to run a multiple sequence alignment with these R1 and R2 …

I want to generate a file that contains multiple HMMs, one each for given genes. HMMER documentation says this can be done, if created from …

I want to compare two MSAs of the same set of protein sequences and determine which is better(I do not have the 'true alignment'). One …

I have a set of protein sequences which I have aligned by using different Multiple Sequence Alignment methods such as TM-Coffee, MUSCLE, multialign in MATLAB, …

<p>Hello,</p> <p>I am currently considering different multiple sequence alignment (MSA) algorithms that I could use to generate an alignment. For the comparison of different alignments …

​Hi guys, ​I have a questions concerning multiple sequence alignments (msa) building algorithms. Which algorithm is "best", to construct a multiple sequence alignment from a …

<p>Hi,</p> <p>How can I calculate the consensus score and the weighted sum of pairs score of three DNA sequences in python?</p>

<p>Hi all,</p> <p>I have multiple sequence alignments (MSAs) of clusters of sequences. I would like to know how I assess whether my MSA is informative …

<p>hi i just want to confirm my method of using sum of pairs is correct.</p> <p>Lets say i have three sequences</p> <pre><code>ACCG_GTA CGAAAA__ TT_GTGTA </code></pre> …

<h2>Background</h2> <p>Earlier I asked a question on how to measure the <strong>"quality"</strong> of a multiple sequence alignment: <a href="http://biostar.stackexchange.com/questions/3668/ab-initio-methods-for-inferring-quality-of-multiple-sequence-alignments">Ab initio methods for inferring quality of …