Hi,
I generated a multiple alignment of 3 bacterial genomes with MUGSY. I am interested in identifying which nucleotide positions in the 3 genomes...
10 results in 0.0030 seconds.
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Query a multiple alignment file
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Did anyone success in working with the broad ABSOLUTE?
Recently I have tried the broad ABSOLUTE package several times with my exome-seq data and noticed that it can also be run under the GenePattern public... -
How to get mouse multiple sequence alignments in fasta format
There are compressed multiple alignments of 59 assemblies to the mouse genome (mm10/GRCm38, Dec. 2011)
Readme and directory:
http://hgdow... -
how to feed de novo assembled transcripts to PhyloCSF
We have human de novo assembled transcripts. Those transcripts were assembled de novo without human genomic by using Trinity/Newbler. We want to use PhyloCSF...Last edited by emanlee; 05-24-2014, 07:50 PM. -
Converting Mugsy output (MAF) to other formats, problems with +/- strand, overlaps
I am aligning bacterial draft genomes to a reference genomes using mugsy v1.2.3, and I'm using the branch of Biopython that supports MAF files to parse... -
ANNOVAR dropped variants... is the MAF filter working?
Hi all!
I have one question about the variant filtering with the useful ANNOVAR software.
I prepare my input in this way:...Last edited by jmatés; 08-19-2013, 02:26 AM. -
LAST output as SAM/BAM
Im testing the sequence read mapping LAST (http://last.cbrc.jp/) But this program only outputs MAF alignment files. I tried using https://github.com/... -
Annotate allele frequencies in a vcf file
Hi everyone,
I want to make you a question although maybe it is really simple and easy:
I'm working with exome sequencing. How...Last edited by Elurbe; 04-03-2013, 11:07 AM. -
TCGA data analysis details
Hi everybody,
We are working heavily with TCGA datasets but we are also a bit stunned about the lack of documentation (maybe we just haven't... -
MAF to VCF of ovarian TCGA data
Has anyone had occasion to convert a MAF file to VCF? There are converters for the opposite direction.
I am trying to convert so that...
