EnglishFrenchSpanish

Ad


OnWorks favicon

bowtie2-build-s - Online in the Cloud

Run bowtie2-build-s in OnWorks free hosting provider over Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator

This is the command bowtie2-build-s that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator

PROGRAM:

NAME


bowtie2-build-s - building a colorspace index for bowtie2

SYNOPSIS


bowtie2-build-s [options]* <reference_in> <bt2_index_base>

DESCRIPTION


Bowtie 2 version 2.2.6 by Ben Langmead ([email protected], www.cs.jhu.edu/~langmea)

reference_in
comma-separated list of files with ref sequences

bt2_index_base
write bt2 data to files with this dir/basename

*** Bowtie 2 indexes work only with v2 (not v1). Likewise for v1 indexes. ***

OPTIONS


-f reference files are Fasta (default)

-c reference sequences given on cmd line (as <reference_in>)

-a/--noauto
disable automatic -p/--bmax/--dcv memory-fitting

-p/--packed
use packed strings internally; slower, less memory

--bmax <int>
max bucket sz for blockwise suffix-array builder

--bmaxdivn <int>
max bucket sz as divisor of ref len (default: 4)

--dcv <int>
diff-cover period for blockwise (default: 1024)

--nodc disable diff-cover (algorithm becomes quadratic)

-r/--noref
don't build .3/.4 index files

-3/--justref
just build .3/.4 index files

-o/--offrate <int>
SA is sampled every 2^<int> BWT chars (default: 5)

-t/--ftabchars <int>
# of chars consumed in initial lookup (default: 10)

--seed <int>
seed for random number generator

-q/--quiet
verbose output (for debugging)

-h/--help
print detailed description of tool and its options

--usage
print this usage message

--version
print version information and quit

Use bowtie2-build-s online using onworks.net services


Free Servers & Workstations

Download Windows & Linux apps

  • 1
    Image Downloader
    Image Downloader
    Crawl and download images using
    Selenium Using python3 and PyQt5.
    Supported Search Engine: Google, Bing,
    Baidu. Keywords input from the keyboard
    or input from ...
    Download Image Downloader
  • 2
    Eclipse Tomcat Plugin
    Eclipse Tomcat Plugin
    The Eclipse Tomcat Plugin provides
    simple integration of a tomcat servlet
    container for the development of java
    web applications. You can join us for
    discussio...
    Download Eclipse Tomcat Plugin
  • 3
    WebTorrent Desktop
    WebTorrent Desktop
    WebTorrent Desktop is for streaming
    torrents on Mac, Windows or Linux. It
    connects to both BitTorrent and
    WebTorrent peers. Now there's no
    need to wait for...
    Download WebTorrent Desktop
  • 4
    GenX
    GenX
    GenX is a scientific program to refine
    x-ray refelcetivity, neutron
    reflectivity and surface x-ray
    diffraction data using the differential
    evolution algorithm....
    Download GenX
  • 5
    pspp4windows
    pspp4windows
    PSPP is a program for statistical
    analysis of sampled data. It is a free
    replacement for the proprietary program
    SPSS. PSPP has both text-based and
    graphical us...
    Download pspp4windows
  • 6
    Git Extensions
    Git Extensions
    Git Extensions is a standalone UI tool
    for managing Git repositories. It also
    integrates with Windows Explorer and
    Microsoft Visual Studio
    (2015/2017/2019). Th...
    Download Git Extensions
  • More »

Linux commands

Ad