Tools for manipulating vcfs doing genomics work
Project description
Tools for manipulating vcfs doing genomics work
Features
Classes:
Chunk: for handling chunks of vcfpy.Record objects
Saver: to save Chunks and vcfpy.Record objects
Types:
SeqType
Methods and constants:
allele_msa: multiple sequence alignments operations
find_read_msas
gen_variants_df
parse_alignments
alleles: manipulating and filling in alleles and variants
combine_ivrs_variants
calc_circular
calc_end_pos
calc_ivrs
check_overlap
gen_alleles_for_chrom_vcf
gen_alleles_from_variants_df
alleles2fastas: converting allele data to fasta sequences
check_fasta_seq_coverage
get_seqlen
infer_entry_name
read_alleles_gts_from_variants
read_alleles_gts_from_vcf
write_fasta_seq
regions: reading and parsing GFF3 and region-feature info
consolidate_gff3
parse_gff3
select_regions
GFF3_COLS
trim: trim alleles or sequences
trim_alleles
trim_allele_seqs
vcf: read VCFs
get_entry_data
parse_records_generator
VCF_COLS
VCF_DEFAULT_DICT
Free software: MIT license
Documentation: https://genomicspy.readthedocs.io.
Credits
This package was created with Cookiecutter and the audreyr/cookiecutter-pypackage project template.
Project details
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
Built Distribution
Hashes for genomicspy-0.1.2-py2.py3-none-any.whl
Algorithm | Hash digest | |
---|---|---|
SHA256 | 8326803f245ca927c8ff6bf4fa95cadb5bc0a99f3652f886d7dde9ee436922d2 |
|
MD5 | 074e1764c03e8f282d719756a904a190 |
|
BLAKE2b-256 | 89387b268f0adedf789aa1ad00e53f134f8bf95b9e1093bd6165b6217b77ffd5 |