Some other available features are:
* Various other adapter types (5' adapters, "mixed" 5'/3' adapters etc.)
* Trimming a fixed number of bases
* Quality trimming
* Trimming colorspace reads
* Filtering reads by various criteria
Use "cutadapt --help" to see all command-line options.
See http://cutadapt.readthedocs.org/ for full documentation.
"""
from __future__ import print_function, division, absolute_import
# Print a helpful error message if the extension modules cannot be imported.
from cutadapt import check_importability
check_importability()
import sys
import time
import errno
from optparse import OptionParser, OptionGroup, SUPPRESS_HELP
import logging
import platform
from cutadapt import seqio, __version__
from cutadapt.xopen import xopen
from cutadapt.adapters import (Adapter, ColorspaceAdapter, gather_adapters,
BACK, FRONT, PREFIX, SUFFIX, ANYWHERE)
from cutadapt.modifiers import (LengthTagModifier, SuffixRemover,
PrefixSuffixAdder, DoubleEncoder, ZeroCapper,
PrimerTrimmer, QualityTrimmer,
* Trimming a fixed number of bases
* Quality trimming
* Trimming paired-end reads
* Trimming colorspace reads
* Filtering reads by various criteria
Use "cutadapt --help" to see all command-line options.
See http://cutadapt.readthedocs.org/ for the full documentation.
"""
from __future__ import print_function, division, absolute_import
# Print a helpful error message if the extension modules cannot be imported.
from cutadapt import check_importability
check_importability()
import sys
import time
import errno
from optparse import OptionParser, OptionGroup, SUPPRESS_HELP
from cutadapt import seqio, __version__
from cutadapt.xopen import xopen
from cutadapt.adapters import Adapter, ColorspaceAdapter, gather_adapters, BACK, FRONT, PREFIX, SUFFIX, ANYWHERE
from cutadapt.modifiers import (
LengthTagModifier,
SuffixRemover,
PrefixSuffixAdder,
DoubleEncoder,
ZeroCapper,