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readtagger

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0.5.25 readtagger-0.5.25-py3-none-any.whl

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Project: readtagger
Version: 0.5.25
Filename: readtagger-0.5.25-py3-none-any.whl
Download: [link]
Size: 93022
MD5: ed968bc114170eefce00e785b105fe99
SHA256: aa5237e7025e7d081fcd3a1d1f6ee6e36e9bc208c6eb7e441474192c09026ae1
Uploaded: 2020-04-07 17:37:02 +0000

dist-info

METADATA · WHEEL · RECORD · top_level.txt · entry_points.txt

METADATA

Metadata-Version: 2.1
Name: readtagger
Version: 0.5.25
Summary: Tags reads in a BAM file based on other BAM files.
Author: Marius van den Beek
Author-Email: m.vandenbeek[at]gmail.com
Home-Page: https://github.com/bardin-lab/readtagger
License: MIT
Keywords: Bioinformatics
Classifier: Development Status :: 5 - Production/Stable
Classifier: Intended Audience :: Developers
Classifier: Environment :: Console
Classifier: Operating System :: POSIX
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Classifier: Natural Language :: English
Classifier: Programming Language :: Python :: 3
Requires-Dist: bcbio-gff
Requires-Dist: biopython
Requires-Dist: cached-property
Requires-Dist: click
Requires-Dist: contextlib2
Requires-Dist: compare-reads
Requires-Dist: edlib
Requires-Dist: matplotlib
Requires-Dist: mappy
Requires-Dist: multiprocessing-logging
Requires-Dist: pandas
Requires-Dist: pysam
Requires-Dist: scipy
Requires-Dist: six
Requires-Dist: pytest; extra == "testing"
Requires-Dist: pytest-datadir; extra == "testing"
Requires-Dist: tox; extra == "testing"
Requires-Dist: planemo; extra == "testing"
Requires-Dist: cookiecutter; extra == "testing"
Requires-Dist: bumpversion; extra == "testing"
Provides-Extra: testing
[Description omitted; length: 24660 characters]

WHEEL

Wheel-Version: 1.0
Generator: bdist_wheel (0.34.2)
Root-Is-Purelib: true
Tag: py3-none-any

RECORD

Path Digest Size
readtagger/__init__.py sha256=tN96_SH4oCw5qpz9ZSSv1A3dqlB0j_BV-2BfQ_Mz_nk 50
readtagger/allow_dovetailing.py sha256=fvlQhP78oTiP5VqjU-QufEsqpUn1ChTgDuQA1HPz8_Q 2492
readtagger/annotate_contigs.py sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU 0
readtagger/assemby_realignment.py sha256=VEUpcqeS0ibntfIxuoBucL5aW9tGUMEsWTwR50WLris 3787
readtagger/bam_io.py sha256=Ui7lk45BeogCObWAkRq79v0tYbg1TNlRWw0iIv2_WD8 11835
readtagger/bwa.py sha256=bRnXcBsyJEefNek9UQBW8Pz039IM9xGAOEOLV7_BvzI 12563
readtagger/cap3.py sha256=4Lqi2HPVTJ80RPRJymSGWSa4debP61UEHHzpg06Bw28 3103
readtagger/cigar.py sha256=y7UtYfTZJ_LW0qfPGc91PSAI6btngoH-7peX4WhsmNk 14235
readtagger/cluster.py sha256=x7aiPGjRTXV2VLZLU1gXu2cij3ZYmXckuDD5HBrasMo 40746
readtagger/cluster_base.py sha256=0OgJXFiflQfsp5HdU_5_q1FSix-ZQVFI17eVc2ApdUI 1991
readtagger/create_multisample_vcf.py sha256=gp9uIcskWnxBkBmEejSTcKBJlVW98TOe4OL7Spx58f4 9445
readtagger/dumb_consensus.py sha256=Rti9cJCIh6YXQyRjxY9Q-mShRQE6VjqJqN1ARYz-Ho4 2625
readtagger/edlib_align.py sha256=U4mrgFTXo3Po6owFagvy458pMN1o0tnDjSsjamVDGDw 1119
readtagger/extract_variants.py sha256=ojHFrHiY9F2FzIjtvn2iNGJsKq9ei4b8GfLnY1Vw5aw 4065
readtagger/fasta_io.py sha256=OYZBDlOQ3XtZjyluMEXCRrs0_5jBPDOL8faRJrI8QDI 1324
readtagger/filter_insertions.py sha256=PS56pfr23Z2pK2iqKE3rDGf1A0gDfftQ0uHB1v8iocg 7369
readtagger/find_softclip_clusters.py sha256=hg6rjxfaTejqtd_9TXAnWc_2DGjHR_MCncOoJAb6VGE 6697
readtagger/findcluster.py sha256=LbnuKM8KdHWrg1y9-UH3lJJpebMQAqZP48xPXGLrLtc 19829
readtagger/genotype.py sha256=_1E7dnD7-uyc-eGeAJ4umuBHZOULTsFgaqjYwV03SN8 2436
readtagger/gff_io.py sha256=C74FimgXol2Y00C5yFVlV9zjVojL_M_waFl7RFbKYpU 2656
readtagger/instance_lru.py sha256=xfme4QM2-iV8eD5xnRMUCmkJCzWFmR0n9XVB52eFhzw 1240
readtagger/mateoperations.py sha256=rB_LG2yB9tWF_i8bBWjr27Rspw3sNYWsYG1pgovxUno 2303
readtagger/normalization.py sha256=0gjniDrrbY0VmG0l8-pSAuizzGZVXJWP5x8ur6xjoWA 5783
readtagger/plot_coverage.py sha256=8oKrXwyyXMZzIX-mJfzK3OANIvG7Ny2qkc4jIh2MgGU 5120
readtagger/pysamtools_view.py sha256=xU-sjOtuHez7mcPhtxfRDrqThCJ7PWWJGGZ_VUNNNS0 1443
readtagger/readtagger.py sha256=O9mhe4bAQaHR-xjNLsC3lNFqY4oW8ATObb1bd4npE6k 22153
readtagger/summarize_fragments.py sha256=D9iNdpTwHFKwjp688dmL4XRfhjrNrkIS6FueMCO8yT0 1965
readtagger/tag_softclip.py sha256=1hlLX2PY-ckoWFW3cKB78fivWsjTW4tTI2wDNknNb3A 6994
readtagger/tagcluster.py sha256=nmYCIaKOEg8z6I-nELgf22t4OkEBBUO1GetjZMP-JUk 12350
readtagger/tags.py sha256=oJWVNJ-b_dDxgY3zd-6JlQcEFnhlU71mUtEtKb9U9OA 7468
readtagger/targetsiteduplication.py sha256=Beo4L7IxsW6UyjAKFoAPsFC2mjB053eQnHGkR3lwdGc 12782
readtagger/update_mapq.py sha256=Pa7KSeXxxsKjpG0NSlrUVLwrLSnG-5U6Hi3phfJgopM 1296
readtagger/utils.py sha256=16cODplIcfOblg-fYOSD8tSlAP_G8IE0fM3IV2tLcGE 1437
readtagger/vcf_io.py sha256=hvsxUCqdFQQWUKxruqE8XNqLakRPBxKEnszleGDzj2I 8222
readtagger/verify.py sha256=8RtBF7u4KP5a2JNhJmLaAvIIBeyLhql7VmVOzvvqjEY 930
readtagger/write_supplementary_fastq.py sha256=571WbAXO2SAo4AQUsvf6iqyyUOmgOofHbm9ZzqQm7Wo 630
readtagger/cli/__init__.py sha256=iXj_3GmEcuu5aDDZFMGYyuaK7l1Tvwp2rgG8JZGVpQQ 33
readtagger/cli/add_matesequence.py sha256=fvt0BLZg2KobjMh-qHTnxERNLyMFRMgxk4zCMTkv7q8 920
readtagger/cli/allow_dovetailing.py sha256=4UQj93wC6ZF6SFYld0JHikItNgnp8XGs4JRH-YwwYAU 587
readtagger/cli/annotate_softclipped_reads.py sha256=sqhYIzKgFOsZhPytJe6Lq-9Y4fyJaJ0_QRA_palK6Zk 1157
readtagger/cli/classify_somatic_insertions.py sha256=Z34v8IjPGQqI_lKtwGzyRAlNx_13Y3zboxbggwSF6C4 1578
readtagger/cli/extract_variants.py sha256=db_yrDFPpchU2XPUcHlWjUPe4yqsftPzZZa4LOBLnkU 591
readtagger/cli/findcluster.py sha256=ElQvk1LF6aTL8OLwDK3v2VQdVUrh_6Fvz2tKxF7UDMM 3798
readtagger/cli/merge_findcluster_vcf.py sha256=oYqEllCTtENqSbU4zHSnk4j0oo1x_XxwtdgYqpirbA8 533
readtagger/cli/normalize_readsizes.py sha256=bF4IOZaGU8pS02m-nFLfOt-He61wq6YOVDEBM_jgzrc 494
readtagger/cli/plot_coverage.py sha256=H1c2NymclEHijBxRB8b7JCOZpoQtbmct3Ln-0zwpwwY 1420
readtagger/cli/pysamtools_view_cli.py sha256=btyodzTbBQFVTgADoimj1PDmWCSUxCvCWqf7gYE0VRg 794
readtagger/cli/readtagger_cli.py sha256=6xdXVG1InNW8eAMu-P52p8rzMN-8AZEhfAD6lm8D_sU 4307
readtagger/cli/summarize_fragments.py sha256=1JQlZ_J3U1kVRY1yVCC4Yqw-6-gnAleIoOJMnJZkfeA 379
readtagger/cli/update_mapq.py sha256=N-VnfSN5IbC98-jCiPhSjk17u5JgX_x-WwHl54E3rIQ 1095
readtagger/cli/write_supplementary_fastq.py sha256=e_fHXeklozceKuSAhfnXGmfLjoXDZEtNFl9DKLFldd8 842
readtagger-0.5.25.dist-info/LICENSE.txt sha256=Zwv2xcSVCsq74-81AmSG--JhqGM5hstQGYOUN2dYPHc 1087
readtagger-0.5.25.dist-info/METADATA sha256=NVWtMm-6Y10UoaTJ-k_VVbRgF7hSidFnYiknuJsy7E4 25920
readtagger-0.5.25.dist-info/WHEEL sha256=g4nMs7d-Xl9-xC9XovUrsDHGXt-FT0E17Yqo92DEfvY 92
readtagger-0.5.25.dist-info/entry_points.txt sha256=Axf2w67Q17xI9a26aVOhwK0w35Sdw2d96h0K6esQGGI 1099
readtagger-0.5.25.dist-info/top_level.txt sha256=0nko1ox_yxNBC337lDzbI07T8G4FeBIh0vJEkx7AeWM 11
readtagger-0.5.25.dist-info/RECORD — —

top_level.txt

readtagger

entry_points.txt

[console_scripts]
add_matesequence = readtagger.cli.add_matesequence:annotate_mate
allow_dovetailing = readtagger.cli.allow_dovetailing:allow_dovetailing
annotate_softclipped_reads = readtagger.cli.annotate_softclipped_reads:annotate_softclipped_reads
confirm_insertions = readtagger.cli.classify_somatic_insertions:confirm_insertions
extract_variants = readtagger.cli.extract_variants:extract_variants
findcluster = readtagger.cli.findcluster:findcluster
merge_clusterfinder_vcfs = readtagger.cli.merge_findcluster_vcf:merge_findcluster
normalize_readsizes = readtagger.cli.normalize_readsizes:normalize_readsizes
plot_coverage = readtagger.cli.plot_coverage:plot_coverage
pysamtools_view = readtagger.cli.pysamtools_view_cli:pysamtools_view
readtagger = readtagger.cli.readtagger_cli:readtagger
summarize_fragments = readtagger.cli.summarize_fragments:cli
update_mapq = readtagger.cli.update_mapq:update_mapq
write_supplementary_fastq = readtagger.cli.write_supplementary_fastq:write_supplementary_fastq