dDocent - Bash pipeline for RAD sequencing

Property Value
Distribution FreeBSD 12
Repository FreeBSD Ports Latest amd64
Package filename dDocent-2.7.8_1.txz
Package name dDocent
Package version 2.7.8
Package release 1
Package architecture amd64
Package type txz
Category biology java perl5 python
Homepage http://ddocent.com
License MIT
Maintainer jwb@FreeBSD.org
Download size 24.91 KB
Installed size 176.60 KB
dDocent is simple bash wrapper to QC, assemble, map, and call SNPs from almost
any kind of RAD sequencing. If you have a reference already, dDocent can be
used to call SNPs from almost any type of NGS data set. It is designed to run
on Linux based machines with large memory capacity and multiple processing
cores, and it can be modified for use on HPC.
WWW: http://ddocent.com


Package Version Architecture Repository
dDocent-2.7.8_1.txz 2.7.8 i386 FreeBSD Ports Latest
dDocent-2.7.8_1.txz 2.7.8 i386 FreeBSD Ports Quarterly
dDocent-2.7.8_1.txz 2.7.8 amd64 FreeBSD Ports Quarterly
dDocent - - -


Name Value
bamtools = 2.5.1
bash = 5.0.7
bedtools = 2.27.1_3
bwa = 0.7.17
cd-hit = 4.8.1_1
coreutils = 8.31
fastp = 0.20.0_1
freebayes = 1.2.0_2
gawk = 5.0.0
gnuplot = 5.2.7_1
mawk =
openjdk8 =
parallel = 20180922
pear-merger = 0.9.6
perl5 = 5.28.2
python36 = 3.6.9
rainbow = 2.0.4
samtools = 1.9
seqtk = 1.2.8
stacks = 2.4_1
trimadap = 0.1.3
trimmomatic = 0.35
unzip = 6.0_8
vcflib = 1.0.0.r1.130
vcftools = 0.1.16


Type URL
Mirror pkg.freebsd.org
Binary Package dDocent-2.7.8_1.txz
Source Package biology/ddocent

Install Howto

Install dDocent txz package:

# pkg install dDocent

See Also

Package Description
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da-freebsd-doc-53465,1.txz Danish translation of the FreeBSD Documentation Project
da-gimp-help-html-2.8.2_1.txz GIMP User Manual in Danish
da-hyphen-2007.09.30_1.txz Danish hyphenation rules
da-libreoffice-6.3.2.txz da language pack for libreoffice
daa2iso-0.1.7e_1.txz Convert PowerISO DAA files to ISO9660
dact-0.8.42_2.txz Dynamic Adaptive Compression Tool
dadadodo-1.04.txz Text processor which analyses text and generates random sentences
dae-0.9.txz List and control system daemon
daemonize-1.7.8.txz Tool to run a command as a daemon
daemonlogger-1.2.1.txz Packet sniffer capable of running as a daemon and as a software tap
daemontools-0.76_18.txz Service monitoring and logging utilities by djb
daemontools-encore-1.10_1.txz Daemontools-encore is a collection of tools for managing UNIX services
daggy-1.1.3_3.txz Data Aggregation Utility: runs commands on remote hosts simultaneously