Results for "sequences"


  • How to separate FASTA sequences by their name in files?

    I have one big file with lots of fasta sequences. I would like to separate the sequences by their name in files. Can anyone please help me to do so. Thanks for your time. Sample fasta sequences in file: >SBI_03055_PP_HisKa|Streptomyces bingchenggensis BCW-1MSSSDAARTGSAEGARDSKRVRTRRTLRDWIVDVC...

    Tags: FASTA, Sequences, Files, Perl

    1469 days ago

  • Extract sequences by their ID from a fasta file. perl -ne 'if(/^>(\S+)/){$c=$i{$1}}$c?print:chomp;$i{$_}=1 if @ARGV' ids.txt sample1.fa #Extract #Sequences #IDs #Fasta #Perl #Trick #Oneliner

    Tags: Extract, Sequences, IDs, Fasta, Perl, Trick, Oneliner

    708 days ago

  • Genome Stability Laboratory

    The bakers yeast, Saccharomyces cerevisiae is an ideal model organism to understand mechanisms of meiotic chromosome segregation. In S. cerevisiae and in mammals, the majority of meiotic crossovers are formed through a highly conserved MSH4p-MSH5p, MLH1p-MLH3p dependent pathway. We are interested...

    Tags: Bioinformatics, CrossOver, Recombination, Gene, Function, Genome, NGS, Sequences, CNV, Selection

    529 days ago

  • Katju Lab

    TheLab seek to understand the genetic factors contributing to genomic variation and phenotypic diversity. To this end, we employ molecular and bioinformatic tools to study evolutionary processes at the level of populations, both experimental and natural, and genomes. Our research interests enco...

    Tags: Bioinformatics, Duplication, Genome, Gene, Function, Population, NGS, Sequences, CNV, Selection

    539 days ago

  • LAST

    LAST can: Handle big sequence data, e.g: Compare two vertebrate genomes Align billions of DNA reads to a genome Indicate the reliability of each aligned column. Use sequence quality data properly. Compare DNA to proteins, with frameshifts. Compare PSSMs to sequences Calculate th...

    Tags: LAST, Bioinformatics, Mapping, Match, Align, Sequences, Compare

    526 days ago

  • Tools for Searching Repeats And Palindromic Sequences

    In genetics, the term palindrome refers to a sequence of nucleotides along a DNA (deoxyribonucleic acid) or RNA (ribonucleic acid) strand that contains the same series of nitrogenous bases regardless from which direction the strand is analyzed. Akin to a language palindrome—wherein a word o...

    Tags: Bioinformatics, Search, Repeats, Palindromic, Sequences, Tools, Software

    453 days ago

  • PhylOligo: a package to identify contaminant or untargeted organism sequences in genome assemblies

    Genome sequencing projects sometimes uncover more organisms than expected, especially for complex and/or non-model organisms. It is therefore useful to develop software to identify mix of organisms from genome sequence assemblies. PhylOligo, a new package including tools to explore, identify and...

    Tags: PhylOligo, package, identify, contaminant, untargeted, organism, sequences, genome, assemblies

    7 days ago