Results for "Satsuma"
Blogs
Tools to detect synteny blocks regions among multiple genomes
...r errors resulting from limitations in map construction methodologies. CoGe (http://genomevolution.org/CoGe/SynFind.pl ) Satsuma (http://evomics.org/learning/genomics/satsuma/) Cinteny (http://cinteny.cc...2611 days ago
Bookmarks
- ...equences, alignments, variation etc.), as well as specialized tool sets for various analyses. It also features three sequence alignment packages: Satsuma, a highly parallelized progra...
3009 days ago
SATSUMA : Highly sensitive whole-genome synteny alignments.
Satsuma is a whole-genome synteny alignment...-coding genes, or neutral sequences. Satsuma does not require any pre-proc...atically detect ambiguous mappings. Satsuma has parallelization built-in...y e-mailing us) is here. If you use Satsuma in your research, please cite...2915 days ago
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Top-level pages
Some useful Bioinformatics links
...om/reubwn/scripts ICEberg http://db-mml.sjtu.edu.cn/ICEberg/index.php Satsuma - Evolution and Genomics http://evomics.org/learning/genomics/satsuma/ A complete bacterial genome...2242 days ago
Bio-Scripts
Loop over with all files in a directory in bash
...-11-13/GCA_000196735.1_ASM19673v1_genomic.fna path=/home/urbe/Tools/SATSUMA/satsuma-code-0 for f in $FILES do...ction on each file. $f store current file name mkdir $ff $path/SatsumaSynteny -q $ref -t $f -o $ff...2332 days ago
Perl script to run SATSUMA in loop !
...use strict; use File::Temp qw(tempfile); # Usage perl 1by1.pl for SATSUMA analysis # User need to se...uery genome my $tarfile = "renamedAdinetaV2.fa"; #Ur target file my $satsumaLoc="/home/urbe/Tools/SATSUMA/...2141 days ago
Tags
- Spines Spines is a collection of software tools, developed and used by the Vertebrate Genome Biology Group at the Broad Institute. It provides basic data structures for efficient data manipulation (mostly genomic sequences, alignments, variation etc.), as well as specialized tool sets ...
Tags: Bioinformatics, Spines, Satsuma, Synteny, Papaya, SLAP, Tools
3009 days ago
GLIBC_2.14 error with SatsumaSynteny !!
I run SatsumaSynteny on my server using following command: [jit@hm satsuma-code-0]$ ./SatsumaSynteny -q Genome/renamedG.fa -t Genome/genome_v4.fasta -o Genome/OutFile -m 128 -ni 10 -n 256 -chain_only But it kill the program with followng error: ./SatsumaSynteny: /lib64/libc.so.6: version...Tags: Satsuma, Synteny, SatsumaSynteny, BLIBC, Redhat, Linux, Server, Comparative Genomics, Alignment
2952 days ago
