Results for "TE"
Top-level pages
Tools for bacterial whole genome annotation
...ne tool, takes just a few minutes per genome. This is the...Pipeline is designed to annotate bacterial and archaeal genome...pipeline depends on several internal databases and is not curr...ojects to independently annotate their genomes and to create g...2345 days ago
Run miniasm assembler on nanopore reads !
...erent from mainstream assemblers, miniasm does not have a consensus step. It simply concatenates pieces of read sequences...p;awk '$5=="-"' AONTself.paf | awk '{print $1}'| sort|uniq > invertedrepeat.list Generated a fe...2344 days ago
Bioinformatics Web Application Development with Perl
...wonderful and keep getting better, and the inventions and disc...ys to mechanize away boilerplate. Perl has dozens of framework...de that does old things in better ways. In particular, Mojoli..., though PSGI compliance is often the choice for new developme...2335 days ago
BBSplit: Read Binning Tool for Metagenomes and Contaminated Libraries
BBSplit internally uses BBMap to map reads to multiple genomes at once, and determine which genome they match...pped ambiguously. But if you want to determine whether reads are mouse...library of something that was contaminated with e.coli and salmonella,...2328 days ago
- ...asta sequences. Some methods are listed below. Using SED sed ...astq > OUTFILE.fasta Using PASTE You can linerize every 4 lin...g paste cat INFILE.fastq | paste - - - - |cut -f 1, 2| sed 's/...] is specified, report will be printed to STDOUT....
2319 days ago
PerlOneLiner for Bioinformatician
...er only lines that match a pattern, print others unmodifiedper...nes in a file that match a pattern (emulate grep -c)perl -lne...ich Mean Time) and local computer timeperl -le 'print scalar g...a".."z"); print $#array + 1' TEXT CONVERSION AND SUBSTITUTION...2316 days ago
- ...samtools view -b -S file.sam > file.bam Then you will need to use Code: $ samtools sort file.bam file-sorted followed by Code: $ samtools index file-sorted.bam in order to get an in...
2305 days ago
List of visualization tools for network biology
...ww.arena3d.org Biana Data integration and network management...on software http://magnet.systemsbiology.net/software/Dizzy/...ne regulation networks and protein interaction maps. http://w...h Web-based tool for integration of user-given stoichio...2302 days ago
List of visualization tools for genome alignments
...improving analysis protocols, testing data quality, and generating result drafts. Its integration in analysis pipelines...seful for analysis and interpretation of results: ABySS...367.html MultiPipMaker Computes alignments of similar region...2297 days ago
Linux Commands Cheat Sheet for Bioinformatics and Computational Biology Professionals
...riting one-liners. File System ls — list items in current directory ls -l&...-s file link — create symbolic link to file touch f...ions ls -l — list items in current directory and sh...sh; search recursively for pattern in dir and only search in f...2294 days ago
