Ecosyste.ms: Issues

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GitHub / churchill-lab/g2gtools issues and pull requests

#31 - fix convert_bcsam_file function

Pull Request - State: closed - Opened by MikeWLloyd 5 months ago - 1 comment

#30 - Extract Error: "Sequence contains non-DNA character '*' at position 393"

Issue - State: open - Opened by jon4thin 6 months ago - 11 comments

#29 - HLA contigs causing errors with g2gtools patch and g2gtools transform

Issue - State: open - Opened by jon4thin 7 months ago - 1 comment

#28 - Assertion error: start must be less than end

Issue - State: open - Opened by amkilpatrick over 1 year ago - 1 comment

#27 - Conda install issue

Issue - State: open - Opened by krovi137 over 1 year ago - 4 comments

#26 - pass on length type error, add proper pair flag

Pull Request - State: open - Opened by MikeWLloyd about 2 years ago

#25 - Is fastfa file required for vcf2vci step?

Issue - State: closed - Opened by rituparna-13 about 3 years ago - 6 comments

#24 - Patched 0 SNPs -> an old .tbi index file seems to be culprit.

Issue - State: open - Opened by mikelove about 3 years ago - 3 comments

#23 - Logging Statement Prints Wrong Value

Issue - State: open - Opened by abhinadduri over 4 years ago

#22 - Location Error and Missing vcf2vci function

Issue - State: closed - Opened by exsquire about 5 years ago - 5 comments

#21 - OverflowError: can't convert negative value to uint32_t

Issue - State: open - Opened by kingralph80 over 5 years ago - 1 comment

#20 - Still issue converting sam/bam files

Issue - State: open - Opened by kingralph80 over 5 years ago - 2 comments

#19 - "Patched 0 SNPs total"

Issue - State: open - Opened by hanbinlu over 5 years ago - 3 comments

#18 - vcf2chain output error

Issue - State: closed - Opened by najoshi over 5 years ago - 1 comment

#17 - convert error (key error, gtf isn't created)

Issue - State: closed - Opened by gikim1234 almost 6 years ago

#15 - Convert fails due to no mappings

Issue - State: closed - Opened by zkalender over 6 years ago - 3 comments

#14 - Unable to Install Version 0.2.0 using conda

Issue - State: closed - Opened by rantingswede373 over 6 years ago - 4 comments

#13 - Unable to Generate Correct *.chain file for Inbred Mouse Strains

Issue - State: closed - Opened by rantingswede373 over 6 years ago - 3 comments

#12 - New Feature - to overcome slow gtf2db

Issue - State: closed - Opened by inti over 6 years ago - 5 comments

#11 - Update gtf_db.py

Pull Request - State: closed - Opened by everestial over 6 years ago

#10 - Update gtf.py

Pull Request - State: closed - Opened by everestial over 6 years ago

#9 - Update g2g_commands.py

Pull Request - State: closed - Opened by everestial over 6 years ago

#8 - Include -f gff to parse GFF file on g2gtools convert

Issue - State: closed - Opened by everestial over 6 years ago

#7 - Problem with preparation of chainfiles when the number of scaffold is high

Issue - State: closed - Opened by everestial over 7 years ago - 1 comment

#5 - Type Error on vcf2chain.py

Issue - State: closed - Opened by everestial over 7 years ago - 16 comments

#4 - AssertionError: start must be less than end

Issue - State: closed - Opened by jpdna almost 8 years ago - 7 comments

#3 - Installation from source modifies base python package permissions

Issue - State: closed - Opened by erscott almost 8 years ago - 1 comment

#2 - error when trying to incorporate indels onto the snp-patched genome

Issue - State: closed - Opened by tmelia over 8 years ago - 1 comment

#1 - conda install error

Issue - State: closed - Opened by AlicePsyche almost 9 years ago - 2 comments