| /dports/biology/py-macs2/MACS-2.2.7.1/MACS2/ |
| H A D | callpeak_cmd.py | 312 …x=b"%s_peak_", name=options.name.encode(), score_column=score_column, trackline=options.trackline )
319 … score_column=score_column, trackline=options.trackline )
325 …ncode(), description=options.name.encode(), score_column=score_column, trackline=options.trackline)
329 …ncode(), description=options.name.encode(), score_column=score_column, trackline=options.trackline)
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| H A D | bdgbroadcall_cmd.py | 60 …refix=(options.oprefix+"_broadRegion").encode(), score_column="score", trackline=options.trackline)
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| H A D | diffpeak_cmd.py | 151 trackline=options.trackline)
176 trackline=options.trackline)
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| H A D | bdgpeakcall_cmd.py | 67 …prefix=(options.oprefix+"_narrowPeak").encode(), score_column="score", trackline=options.trackline)
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| H A D | PeakDetect.pyx | 239 if self.opt.trackline: scorecalculator.enable_trackline()
350 if self.opt.trackline: scorecalculator.enable_trackline()
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/import/unit_test/data/input/ |
| H A D | test-error-trackline.bed | 1 track name="test-error-trackline" description="track1" colorByStrand="no good" itemRgb="invalid"
9 track name="test-error-trackline" description="track2" itemRgb="invalid"
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| /dports/biology/py-macs2/MACS-2.2.7.1/MACS2/IO/ |
| H A D | PeakIO.pyx | 269 trackline=False, print_func=sys.stdout.write): argument
281 if trackline:
298 bool trackline=False, print_func=sys.stdout.write): argument
309 if trackline:
353 bytes description = b"%s", str score_column="score", trackline=True): argument
377 print_func=fhd.write, trackline=trackline)
402 print_func=fhd.write, trackline=trackline)
469 if trackline:
979 if trackline:
1053 if trackline:
[all …]
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| H A D | ScoreTrack.pyx | 414 bool trackline # whether trackline should be saved in bedGraph
453 self.trackline = False
479 """Turn on trackline with bedgraph output
481 self.trackline = True
952 if self.trackline:
1532 #if self.trackline:
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| H A D | CallPeakUnit.pyx | 316 bool trackline # whether trackline should be saved in bedGraph
405 self.trackline = False
467 """Turn on trackline with bedgraph output
469 self.trackline = True
939 if self.trackline:
1508 if self.trackline:
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| H A D | BedGraph.pyx | 231 def write_bedGraph (self, fhd, str name, str description, bool trackline=True): argument
245 if trackline:
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| H A D | ScoreTrack.c | 1244 PyBoolObject *trackline; member
9676 __Pyx_GOTREF(__pyx_v_self->trackline); in __pyx_pf_5MACS2_2IO_10ScoreTrack_12scoreTrackII___init__()
9677 __Pyx_DECREF(((PyObject *)__pyx_v_self->trackline)); in __pyx_pf_5MACS2_2IO_10ScoreTrack_12scoreTrackII___init__()
9990 __Pyx_GOTREF(__pyx_v_self->trackline); in __pyx_f_5MACS2_2IO_10ScoreTrack_12scoreTrackII_enable_trackline()
9991 __Pyx_DECREF(((PyObject *)__pyx_v_self->trackline)); in __pyx_f_5MACS2_2IO_10ScoreTrack_12scoreTrackII_enable_trackline()
9992 __pyx_v_self->trackline = ((PyBoolObject *)Py_True); in __pyx_f_5MACS2_2IO_10ScoreTrack_12scoreTrackII_enable_trackline()
21911 __Pyx_INCREF(((PyObject *)__pyx_v_self->trackline)); in __pyx_pf_5MACS2_2IO_10ScoreTrack_12scoreTrackII_30__reduce_cython__()
30003 __Pyx_GOTREF(__pyx_v___pyx_result->trackline); in __pyx_f_5MACS2_2IO_10ScoreTrack___pyx_unpickle_scoreTrackII__set_state()
33138 Py_CLEAR(p->trackline); in __pyx_tp_dealloc_5MACS2_2IO_10ScoreTrack_scoreTrackII()
33156 if (p->trackline) { in __pyx_tp_traverse_5MACS2_2IO_10ScoreTrack_scoreTrackII()
[all …]
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| H A D | CallPeakUnitPrecompiled.c | 1285 PyBoolObject *trackline; member
6094 __Pyx_GOTREF(__pyx_v_self->trackline); in __pyx_pf_5MACS2_2IO_23CallPeakUnitPrecompiled_28CallerFromPrecompiledPileups___init__()
6095 __Pyx_DECREF(((PyObject *)__pyx_v_self->trackline)); in __pyx_pf_5MACS2_2IO_23CallPeakUnitPrecompiled_28CallerFromPrecompiledPileups___init__()
6096 __pyx_v_self->trackline = ((PyBoolObject *)Py_False); in __pyx_pf_5MACS2_2IO_23CallPeakUnitPrecompiled_28CallerFromPrecompiledPileups___init__()
6993 __Pyx_GOTREF(__pyx_v_self->trackline); in __pyx_f_5MACS2_2IO_23CallPeakUnitPrecompiled_28CallerFromPrecompiledPileups_enable_trackline()
6994 __Pyx_DECREF(((PyObject *)__pyx_v_self->trackline)); in __pyx_f_5MACS2_2IO_23CallPeakUnitPrecompiled_28CallerFromPrecompiledPileups_enable_trackline()
6995 __pyx_v_self->trackline = ((PyBoolObject *)Py_True); in __pyx_f_5MACS2_2IO_23CallPeakUnitPrecompiled_28CallerFromPrecompiledPileups_enable_trackline()
27677 Py_CLEAR(p->trackline); in __pyx_tp_dealloc_5MACS2_2IO_23CallPeakUnitPrecompiled_CallerFromPrecompiledPileups()
27717 if (p->trackline) { in __pyx_tp_traverse_5MACS2_2IO_23CallPeakUnitPrecompiled_CallerFromPrecompiledPileups()
27718 e = (*v)(((PyObject *)p->trackline), a); if (e) return e; in __pyx_tp_traverse_5MACS2_2IO_23CallPeakUnitPrecompiled_CallerFromPrecompiledPileups()
[all …]
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| H A D | CallPeakUnit.c | 1249 PyBoolObject *trackline; member
6805 __Pyx_GOTREF(__pyx_v_self->trackline); in __pyx_pf_5MACS2_2IO_12CallPeakUnit_20CallerFromAlignments___init__()
6806 __Pyx_DECREF(((PyObject *)__pyx_v_self->trackline)); in __pyx_pf_5MACS2_2IO_12CallPeakUnit_20CallerFromAlignments___init__()
6807 __pyx_v_self->trackline = ((PyBoolObject *)Py_False); in __pyx_pf_5MACS2_2IO_12CallPeakUnit_20CallerFromAlignments___init__()
7838 __Pyx_GOTREF(__pyx_v_self->trackline); in __pyx_f_5MACS2_2IO_12CallPeakUnit_20CallerFromAlignments_enable_trackline()
7839 __Pyx_DECREF(((PyObject *)__pyx_v_self->trackline)); in __pyx_f_5MACS2_2IO_12CallPeakUnit_20CallerFromAlignments_enable_trackline()
7840 __pyx_v_self->trackline = ((PyBoolObject *)Py_True); in __pyx_f_5MACS2_2IO_12CallPeakUnit_20CallerFromAlignments_enable_trackline()
28990 Py_CLEAR(p->trackline); in __pyx_tp_dealloc_5MACS2_2IO_12CallPeakUnit_CallerFromAlignments()
29025 if (p->trackline) { in __pyx_tp_traverse_5MACS2_2IO_12CallPeakUnit_CallerFromAlignments()
29026 e = (*v)(((PyObject *)p->trackline), a); if (e) return e; in __pyx_tp_traverse_5MACS2_2IO_12CallPeakUnit_CallerFromAlignments()
[all …]
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| H A D | PeakIO.c | 870 PyObject *trackline; member
887 PyBoolObject *trackline; member
8085 __pyx_v_trackline = __pyx_optional_args->trackline; in __pyx_f_5MACS2_2IO_6PeakIO_6PeakIO__to_bed()
9039 __pyx_v_trackline = __pyx_optional_args->trackline; in __pyx_f_5MACS2_2IO_6PeakIO_6PeakIO__to_summits_bed()
10272 __pyx_t_3.trackline = __pyx_v_trackline; in __pyx_pf_5MACS2_2IO_6PeakIO_6PeakIO_26write_to_bed()
10494 __pyx_t_3.trackline = ((PyBoolObject *)__pyx_v_trackline); in __pyx_pf_5MACS2_2IO_6PeakIO_6PeakIO_28write_to_summit_bed()
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| /dports/biology/py-macs2/MACS-2.2.7.1/test/ |
| H A D | test_ScoreTrack.py | 194 p.write_to_bed( strio, trackline = False )
198 p.write_to_summit_bed( strio, trackline = False )
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| /dports/audio/p5-Audio-FLAC-Header/Audio-FLAC-Header-2.4/ |
| H A D | Header.pm | 659 my $trackline = sprintf(" TRACK %02d %s\n", $tracknum, $isAudio ? "AUDIO" : "DATA");
661 push (@$cuesheet, $trackline);
|
| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/import/unit_test/data/golden/ |
| H A D | test-error-trackline.asn1 | 4 name "test-error-trackline",
22 data str "test-error-trackline"
|
| /dports/biology/ugene/ugene-40.1/data/workflow_samples/NGS/ |
| H A D | chipseq_coverage.uwl | 168 genomecov.trackline-id {
|
| /dports/graphics/graphviz/graphviz-2.44.1/lib/glcomp/ |
| H A D | glcompdefs.h | 320 glCompPanel *trackline; member
|
| /dports/graphics/gmt/gmt-6.3.0/doc/rst/source/supplements/mgd77/ |
| H A D | mgd77track.rst | 156 Append *pen* used for the trackline. [Defaults:
|
| H A D | mgd77manage.rst | 273 geophysical trackline data stored in an architecture-independent CF-1.0-
|
| /dports/biology/bedtools/bedtools2-2.30.0/docs/content/tools/ |
| H A D | genomecov.rst | 64 **-trackline** | Adds a UCSC/Genome-Browser track line definition in the first li…
|
| /dports/biology/py-macs2/MACS-2.2.7.1/ |
| H A D | ChangeLog | 365 6) Fixed issue #51: fix the problem when using --trackline
590 * Added --no-trackline
1551 * Added --no-trackline
|
| /dports/biology/bedtools/bedtools2-2.30.0/docs/content/ |
| H A D | history.rst | 534 …- Added new -5, -3, -trackline, -trackopts, and -dz options. Many thanks to Assaf Gordon for thes…
537 -trackline: Adds a UCSC/Genome-Browser track line definition in the first line of the output.
|
| /dports/graphics/gmt/gmt-6.3.0/doc/rst/source/ |
| H A D | changes.rst | 1223 decimate the trackline coordinates by only plotting every *gap* point.
|