churchill-lab g2gtools issues

churchill-lab / g2gtools

Personal diploid genome creation and coordinate conversion

http://churchill-lab.github.io/g2gtools

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issues

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

#30 jon4thin opened 1 month ago
11
HLA contigs causing errors with g2gtools patch and g2gtools transform

#29 jon4thin opened 1 month ago
1
Assertion error: start must be less than end

#28 amkilpatrick opened 10 months ago
1
Conda install issue

#27 krovi137 opened 1 year ago
1
pass on length type error, add proper pair flag

#26 MikeWLloyd opened 1 year ago
0
Is fastfa file required for vcf2vci step?

#25 rituparna-13 closed 2 years ago
6
Patched 0 SNPs -> an old .tbi index file seems to be culprit.

#24 mikelove opened 2 years ago
3
Logging Statement Prints Wrong Value

#23 abhinadduri opened 4 years ago
0
Location Error and Missing vcf2vci function

#22 exsquire closed 4 years ago
5
OverflowError: can't convert negative value to uint32_t

#21 kingralph80 opened 4 years ago
1
Still issue converting sam/bam files

#20 kingralph80 opened 4 years ago
2
"Patched 0 SNPs total"

#19 hanbinlu opened 5 years ago
3
vcf2chain output error

#18 najoshi closed 5 years ago
1
convert error (key error, gtf isn't created)

#17 gikim0203 closed 5 years ago
0
what vcf file to input to g2gtools v0.2.7 vcf2vci -i? indels or snps? or both?

#16 xiaodongpang23 closed 5 years ago
1
Convert fails due to no mappings

#15 zkalender closed 5 years ago
3
Unable to Install Version 0.2.0 using conda

#14 rantingswede373 closed 6 years ago
4
Unable to Generate Correct *.chain file for Inbred Mouse Strains

#13 rantingswede373 closed 6 years ago
3
New Feature - to overcome slow gtf2db

#12 inti closed 5 years ago
5
Update gtf_db.py

#11 everestial closed 6 years ago
0
Update gtf.py

#10 everestial closed 6 years ago
0
Update g2g_commands.py

#9 everestial closed 6 years ago
0
Include -f gff to parse GFF file on g2gtools convert

#8 everestial closed 5 years ago
0
Problem with preparation of chainfiles when the number of scaffold is high

#7 everestial closed 5 years ago
1
TypeError when running g2gtools (vcf2chain) with --diploid option

#6 everestial closed 6 years ago
0
Type Error on vcf2chain.py

#5 everestial closed 6 years ago
16
AssertionError: start must be less than end

#4 jpdna closed 5 years ago
7
Installation from source modifies base python package permissions

#3 erscott closed 7 years ago
1
error when trying to incorporate indels onto the snp-patched genome

#2 tmelia closed 7 years ago
1
conda install error

#1 AlicePsyche closed 8 years ago
2