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bsbdenovo-list [2017/11/14 05:55]
telatina created
bsbdenovo-list [2017/11/14 09:44] (current)
telatina
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   * ''​seqkit''​ - a tool to view, parse and manipulate FASTA/FASTQ files, **essential**   * ''​seqkit''​ - a tool to view, parse and manipulate FASTA/FASTQ files, **essential**
   * ''​seqtk''​ - another tool to view, parse and manipulate FASTA/FASTQ files, **optional**   * ''​seqtk''​ - another tool to view, parse and manipulate FASTA/FASTQ files, **optional**
-  * ''​spades''​ - a program for //de novo// assembly [[http://​bioinf.spbau.ru/​spades|website]],​ **essential**+  * ''​spades''​ - a program for //de novo// assembly [[http://​bioinf.spbau.ru/​spades|website]],​ **essential, already installed**
   * ''​velvet''​ - an older program for //de novo// assembly [[https://​www.ebi.ac.uk/​~zerbino/​velvet/​|website]],​ **optional**   * ''​velvet''​ - an older program for //de novo// assembly [[https://​www.ebi.ac.uk/​~zerbino/​velvet/​|website]],​ **optional**
-  * ''​fastqc''​ - a program to create a quality report of NGS files, *already installed**+  * ''​fastqc''​ - a program to create a quality report of NGS files, ​**already installed** 
 +  * ''​jellyfish''​ - tool to count k-mer occurrences in DNA sequences, **optional, ​already installed**