issues
search
zengxiaofei
/
HapHiC
HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data
https://www.nature.com/articles/s41477-024-01755-3
BSD 3-Clause "New" or "Revised" License
141
stars
10
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
consult
#91
casusr
opened
9 hours ago
0
Is there a way to extract hic reads for binning ?
#90
Isoris
opened
3 days ago
0
how to simulate Hi-C data？
#89
Yichen-HNU
closed
1 week ago
2
Why the result does not look better than _quick view mode_ after I provide nchrs?
#88
George-Zhou02
closed
1 week ago
2
haphic refsort
#87
lijphd168866
closed
4 days ago
4
Limited valid data size of filtered BAM file in phased polyploid assembly
#86
Axolotl233
opened
3 weeks ago
0
[p_utg] Stange Hi-C maps after diploid scaffolding from polished hifiasm unitigs
#85
Isoris
opened
1 month ago
1
Can HapHiC support multiple BAM input ？
#84
ChengQin01
closed
2 weeks ago
2
[Hi-C maps] How to manage heterotype duplications?
#83
Isoris
opened
1 month ago
2
Installing HapHic is so troublesome, it keeps giving errors. I'm really fed up with this software.
#82
daixiahu123456
closed
1 month ago
2
OverflowError: signed integer is greater than maximum
#81
lstxmu
opened
1 month ago
7
Inquiry about Using Additional Tools for Chromosome Reordering after HapHiC analysis
#80
ucsfpan
closed
1 month ago
23
Off diagonal strong signal
#79
ghost
closed
1 month ago
5
Groups length shows gradient distribution
#78
yplee614
closed
1 month ago
2
The signal on one end of pseudochromosomes is missing
#77
tinyfallen
closed
3 weeks ago
12
haphic pipeline: error: argument nchrs: invalid int value: 'nchrs'
#76
ghost
closed
1 month ago
6
zsh: permissionned denied
#75
ghost
closed
1 month ago
2
[Help] for choosing MAPQ settings on F1 Hybrid genome
#74
Isoris
closed
1 month ago
2
Error when the original contig exceeds 500Mb (2^29)
#73
lpzoaa
closed
1 month ago
2
Scaffolding of Micro-chromosomes
#72
hrluo93
closed
1 month ago
4
Does the haphic suitable for the Dovetail OmniC extraction?
#71
Jimingliu60
closed
1 month ago
1
How to assemble a Haplotype-phased genome?
#70
chaofan520
closed
1 month ago
4
Sort and locate the HIC heatmap using the reference genome
#69
cht-jk
closed
1 month ago
1
Haplotype inference on polyploids
#68
Rhia15
closed
1 month ago
4
workflow assistance with hifiasm assembly for a triploid
#67
gunjanpandey
closed
1 month ago
8
haphic refsort
#66
Pwuchn
closed
2 months ago
2
Refsort
#65
Rhia15
closed
2 months ago
2
mis-matched .fa <--> .gfa after purging
#64
gemmacol
closed
1 month ago
4
Sequence lost after Juicebox curation
#63
lancelot-bio
closed
2 months ago
28
loss centromere contacts
#62
PengfeiInTuebingen
closed
2 months ago
2
[E::bgzf_read] Read block operation failed with error 4 after 0 of 4 bytes samtools view: error reading file "HiC.bam" samtools view: error closing "HiC.bam": -1
#61
cht-jk
closed
2 months ago
14
OmniC data
#60
octpalacios
closed
2 months ago
2
Error about "haphic pipeline p_utg HiC.filtered.bam nchrs --gfa p_utg.gfa".
#59
yangyyhh
closed
2 months ago
1
Eorr with haphic pipeline p_utg HiC.filtered.bam nchrs --gfa p_utg.gfa
#58
yangyyhh
closed
2 months ago
2
The command "haphic pipeline asm.fa HiC.filtered.bam 11" encountered an error: "<Signals.SIGSEGV: 11>".
#57
S-iff
closed
2 months ago
4
haphic plot
#56
ShumderLee
closed
2 months ago
2
some chromosomes were grouped together, or the maximum number of clusters is even less than the expected number of chromosomes.
#55
Xiaogongao
closed
2 months ago
2
I installed the yaml file from github via conda, but put the error in the haphic plot.
#54
taotaoyuan
closed
2 months ago
2
How to set nchr in human male?
#53
DayTimeMouse
closed
2 months ago
6
Error with "filter_bam" "[main_samview] fail to read the header from "-"."
#52
S-iff
closed
2 months ago
2
Exception in thread "main" java.lang.OutOfMemoryError: GC overhead limit exceeded
#51
DayTimeMouse
closed
2 months ago
4
Assemble a diploid genome based on Hi-C data from a tetraploid genome assembly
#50
awesomedeer
closed
2 months ago
2
How to improve scaffolding efficiency
#49
vergilback
closed
2 months ago
3
Haphic plot question
#48
majssssa
closed
2 months ago
6
Chromosome number parameters
#47
awesomedeer
closed
3 months ago
12
Wrong assembly of X chromosome
#46
gotouerina
closed
3 months ago
2
the applicability of haphic
#45
ChuanzhengWei
closed
3 months ago
2
Question for Work with hifiasm
#44
lijl459
closed
3 months ago
5
403 FORBIDDEN occurred when installing dependencies using conda
#43
zhang121a
closed
3 months ago
6
I encountered an issue during the installation of HapHic
#42
wiltbb
closed
3 months ago
2
Next