Ecosyste.ms: Issues

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GitHub / OmarOakheart/nPhase issues and pull requests

#26 - nphase takes a long time at GATK step

Issue - State: open - Opened by mdondrup 9 months ago - 4 comments

#24 - NameError: name 'cachedSimilarities' is not defined

Issue - State: open - Opened by NaphatCode over 1 year ago - 5 comments

#23 - Extract phased variants or reads

Issue - State: open - Opened by Adamtaranto almost 2 years ago - 5 comments

#22 - Duration and Heterozygosity

Issue - State: open - Opened by rmormando about 2 years ago - 28 comments

#21 - Can run nPhase due to lack of matplotlib._contour

Issue - State: closed - Opened by ulaszewski about 2 years ago - 4 comments

#20 - Output FQ file is empty

Issue - State: closed - Opened by kangxiongbin over 2 years ago - 4 comments

#19 - Applying to contigs or chromosome-level scaffolds

Issue - State: closed - Opened by OZTaekOppa over 2 years ago - 19 comments

#18 - Number of haplotig

Issue - State: closed - Opened by Lcornet over 2 years ago - 6 comments

#17 - Process killed after variant calling on short reads

Issue - State: closed - Opened by elsasverris over 2 years ago - 2 comments

#16 - Is it possible to run nPhase without short reads?

Issue - State: closed - Opened by zhaotao1987 almost 3 years ago - 59 comments

#15 - No clusters found

Issue - State: closed - Opened by Lcornet almost 3 years ago - 20 comments

#14 - Nphase partial error

Issue - State: closed - Opened by Mondlii almost 3 years ago - 11 comments

#13 - nPhase needs a guide/tutorial for working on large/very heterozygous genomes

Issue - State: open - Opened by OmarOakheart almost 3 years ago - 2 comments

#12 - nPhase on one chromosome

Issue - State: open - Opened by elsasverris almost 3 years ago - 3 comments

#11 - nPhase is too slow/memory intensive

Issue - State: open - Opened by OmarOakheart about 3 years ago - 1 comment

#10 - nPhase has no option to set max heterozygosity level

Issue - State: open - Opened by OmarOakheart about 3 years ago

#9 - ZeroDivisionError in assignLongReadToSNPs when samLines < 100

Issue - State: open - Opened by a-lud about 3 years ago - 1 comment

#7 - Running nPhase partial with mapped short reads

Issue - State: closed - Opened by jdenkena over 3 years ago

#6 - Running nPhase partial with mapped short reads

Issue - State: open - Opened by jdenkena over 3 years ago - 4 comments

#5 - Short reads unsuccessfully mapped to reference

Issue - State: closed - Opened by Lcornet almost 4 years ago - 5 comments

#4 - error in : Identified heterozygous SNPs in short read VCF

Issue - State: closed - Opened by Lcornet almost 4 years ago - 9 comments

#3 - errors in partial and full pipeline

Issue - State: closed - Opened by danessel about 4 years ago - 2 comments

#2 - fastQ file creation failed

Issue - State: closed - Opened by OmarOakheart about 4 years ago - 3 comments

#1 - averageScore+=QScores[Q] KeyError: 'Q'

Issue - State: closed - Opened by OmarOakheart about 4 years ago - 1 comment
Labels: bug