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KolmogorovLab
/
hapdup
Pipeline to convert a haploid assembly into diploid
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Phase block and hapdup_phased_{1,2}.fasta
#43
WeichenZhou
opened
2 weeks ago
2
Too good to be true? understanding hapdup results
#42
cahuparo
opened
3 months ago
5
ERROR: NO COMMON CONTIGS FOUND BETWEEN THE BAM FILE AND THE FASTA FILE
#41
Axze-rgb
opened
4 months ago
6
Are Dorado reads supported?
#40
Axze-rgb
closed
4 months ago
2
Issue with Hapdup
#39
santoshe1
closed
3 months ago
1
Contigs without assigned phaseblocks in their name
#38
sivico26
opened
7 months ago
3
stderr throw away (2>/dev/null) during polishing steps results in troubleshooting difficulties
#37
Sam-Koehler
opened
8 months ago
1
hapdup_phased_{1,2}.fasta
#36
EDISON2022W
closed
9 months ago
1
Issue with selection of PEPPER model for new ONT chemistry
#35
thainsCEB
closed
3 months ago
5
Exception: Missing output
#34
Andreas-Bio
opened
11 months ago
2
Cannot Find HapDup in Conda
#33
FrostFlow13
closed
11 months ago
1
Support for CLR reads?
#32
ptrebert
closed
12 months ago
4
Hapdup did not generate expected folder/files
#31
EDISON2022W
closed
9 months ago
2
Error to run hapdup-0.12
#30
EDISON2022W
closed
1 year ago
1
Problem running HapDup
#29
mwjraats
closed
1 year ago
1
hapdup tool related error
#28
dasn588
closed
1 year ago
4
Question about no result from Margin
#27
yzhang-github-pub
opened
1 year ago
7
unexpected keyword argument 'index_filename'
#26
rmormando
closed
1 year ago
2
hapdup fails with multiple primary alignments
#25
mattloose
closed
1 year ago
4
Flye polisher fails on a bam with `--eqx`
#24
mikolmogorov
closed
1 year ago
3
read length inference bug
#23
WenyuLiang
closed
1 year ago
1
compiling errors
#22
rmormando
closed
1 year ago
1
--overwrite fails
#21
mattloose
closed
1 year ago
2
ZeroDivisionError
#20
mattloose
closed
1 year ago
4
Subprocess flye --polish-target fails
#19
elcortegano
closed
1 year ago
2
ERROR: NO COMMON CONTIGS FOUND BETWEEN THE BAM FILE AND THE FASTA FILE
#18
bo8883
closed
2 years ago
4
phase block number compared to Whatshap
#17
MichelMoser
opened
2 years ago
3
Docker installation problem
#16
rpzhao
closed
2 years ago
2
Super cool tool! Maybe in the README mention that FASTQ files are required if using the container
#15
jelber2
closed
2 years ago
3
Incorrect genotype for large deletion
#14
GuillaumeHolley
closed
2 years ago
7
Option to set minimap2 -I flag
#13
fellen31
closed
1 year ago
3
A few questions
#12
GuillaumeHolley
closed
2 years ago
2
Some questions about using HapDup
#11
zmz1988
closed
2 years ago
2
pthread_setaffinity_np failed Error while running pepper
#10
LYC-vio
closed
2 years ago
11
Using Pepper-MARGIN r0.7?
#9
GuillaumeHolley
closed
2 years ago
3
Please add CLI option to specify location of BAM index
#8
bkmartinjr
closed
2 years ago
3
invalid contig
#7
tongyin121
closed
2 years ago
7
Unable to assemble to chromosomes
#6
tongyin121
closed
2 years ago
2
Changing `pepper_variant` variant calling mode from ONT to HiFi
#5
aseetharam
closed
2 years ago
2
GPU support
#4
MichelMoser
closed
2 years ago
2
Docker fails to mount HD_DIR
#3
alkminion1
closed
2 years ago
8
non haploid assembly as input
#2
kallekarlhugo
closed
2 years ago
1
Singularity
#1
GuillaumeHolley
closed
2 years ago
3