vibansal HapCUT2 issues

vibansal / HapCUT2

software tools for haplotype assembly from sequence data

BSD 2-Clause "Simplified" License

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issues

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Update Makefile

#137 jlchen5 opened 1 month ago
1
Release name for 1.3.3 tag wrong

#136 Flamefire opened 5 months ago
1
Core dumped

#135 seynard opened 8 months ago
0
VCF with deletions

#134 dmjask opened 10 months ago
0
running extractHAIRS with very large maxIS

#133 A-J-F-Mackintosh closed 10 months ago
2
HapCUT2 does not phase this variant directly adjacent to another and overlapping another other.

#132 jan-glx opened 11 months ago
1
Convert block file to vcf after pruning

#131 pdimens opened 1 year ago
1
About maximum insert size of Hi-C data

#130 Yutang-ETH closed 1 year ago
2
Merge vcf when combine HiC+HiFi?

#129 miaoxm2 closed 1 year ago
1
Skip non-diploid or other invalid variants instead of raising error

#128 pontushojer opened 1 year ago
0
Error while running extractHAIRS

#127 uncleflybfchen opened 1 year ago
2
Prevent a segfault error heuristically

#126 pintomollo opened 1 year ago
0
docs fix

#125 soymintc closed 1 year ago
1
calculate_haplotype_statistics.py slightly differs from block headers

#124 magnitov opened 2 years ago
0
Feature/newer gcc compat

#123 snehring closed 2 years ago
0
There is a bit of confusion about the hic model

#122 YilinZhang449 closed 1 year ago
1
double free or corruption (out)

#121 tiffuhu opened 2 years ago
1
error while loading shared libraries: libhts.so.3

#120 sandipmkale opened 2 years ago
1
is this tool suitable for Creating a phased VCF of proximal variants?

#119 gudeqing opened 2 years ago
1
Is there a docker image for this tool?

#118 gudeqing opened 3 years ago
2
split blocks

#117 ruqianl closed 3 years ago
4
Possible to combine HiC, stLFR(10x) and nanopore long reads for phasing?

#116 melop closed 3 years ago
1
Segfault on extracthairs

#115 klannert opened 3 years ago
2
Enable the use of the MI tag to detect molecules

#114 pontushojer closed 3 years ago
1
Only a small part of SNPs can be phased

#113 JFF1594032292 closed 3 years ago
1
Question: support for de novo SNV/INDEL variants

#112 jbelyeu closed 3 years ago
4
Obtaining Phased Haplotypes

#111 psur9757 opened 3 years ago
5
HOMOZYGOUS_PRIOR too small

#110 jzhang-dev closed 3 years ago
2
HapCutToVcf result deal

#109 LILIHAN-001 opened 3 years ago
0
Only chr1 is phased.

#108 zhpn1024 closed 3 years ago
4
More robust alignment index checking

#107 EdHarry closed 3 years ago
0
which pipeline is good for calling variants?

#106 sunnycqcn closed 3 years ago
0
HAPCUT2 error "segmentation fault (core dumped)"

#105 kisudsoe closed 3 years ago
1
Make error (htslib not found)

#104 akijarl closed 4 years ago
2
Phasing information from Supplementary alignments

#103 MaestSi closed 4 years ago
4
Phase block contains variants from consecutive (different) chromosomes

#102 andremho closed 4 years ago
11
run_hapcut2_fosmid_data.sh fails

#101 mathog closed 4 years ago
5
Haplotype blocks between chromosomes

#100 conchoecia closed 4 years ago
1
Conda version outdated

#99 StephenRicher closed 4 years ago
1
HiC with HiC-Pro

#98 Yujiaxin419 closed 4 years ago
0
Release 1.3 build warnings patch

#97 mathog closed 4 years ago
3
output vcf headers

#95 conchoecia closed 4 years ago
1
Hi-C with bwa mem -5SPM

#94 conchoecia closed 4 years ago
2
Duitama et al. data download

#93 robinweide closed 4 years ago
2
Valid [GT] accepted by extractHAIRS

#92 agroppi closed 4 years ago
2
Outdated README

#91 FrickTobias closed 4 years ago
4
10X Genomics data in hapCUT2

#90 burri-wildlight opened 4 years ago
8
core segemntaion fault

#89 dhwani2410 closed 4 years ago
5
multiple sequencing platform

#88 wyim-pgl closed 4 years ago
3
Convert HapCUT2 to use the HTSlib API instead of the legacy samtools API

#87 jmarshall closed 4 years ago
0