Issues
- 0
- 0
Changed output from filter_remapped_reads.py
#122 opened by kwcurrin - 2
Is it feasible to use population-level SNP instead of individual sample's variant information?
#121 opened by zhangjy859 - 0
Error parsing genotype likelihoods
#120 opened by aanderson54 - 0
- 2
- 0
Is WASP suitable for WGBS data?
#118 opened by taolincj - 2
ind_intersecting_snps.py error
#79 opened by raungar - 1
find_intersecting_snps.py: for pair in product(new_reads[0][group], new_reads[1][group]): IndexError: list index out of range
#110 opened by jegalle - 0
VCF to HDF5 Error
#117 opened by PaulinaUrbana - 16
- 0
error in rule "get_as_counts" / bam2h5.py
#116 opened by azurillandfriend - 1
running snp2h5 in the mapping snakemake
#115 opened by azurillandfriend - 2
filter_remapped_reads.py with bams created by HISAT2/ other mappers than Bowtie2
#114 opened by azurillandfriend - 0
Incomplete h5 files with snp2h5
#113 opened by brewert2 - 0
- 1
Whole genome sequencing data
#111 opened by maggietsui - 1
Represent phased blocks in VCF file
#109 opened by ramesh8v - 0
Minor typo in Snakefile
#108 opened by rschwess - 6
- 3
find_intersecting_snps.py
#107 opened by LunaPatton - 2
filter_remapped_reads.py
#106 opened by p4rkerw - 3
Small sample size
#105 opened by montenegrina - 0
VisibleDeprecationWarning: Creating an ndarray from ragged nested sequences (which is a list-or-tuple of lists-or-tuples-or ndarrays with different lengths or shapes) is deprecated
#103 opened by gbloeb - 0
- 0
Missing step in CHT readme?
#100 opened by Zepeng-Mu - 1
- 0
- 2
speedup for fit_as_coefficients?
#97 opened by lw157 - 5
- 3
- 4
update_total_depth takes too long
#96 opened by lw157 - 1
zlib version check suggestion
#92 opened by nicolasrochette - 4
- 5
snp2h5 reads vcfs as empty
#91 opened by snaqvi1990 - 5
Running WASP per chromosome
#83 opened by arielmadr - 1
Could not find test snp
#90 opened by SaideepGona - 5
Incorrect matching during Step2 of CHT
#89 opened by katiearacena - 1
Obtaining phased genotype data
#88 opened by katiearacena - 1
No module named 'util'
#87 opened by viraj-rapolu - 7
- 3
- 0
HDF5 vs text-based
#84 opened by robinweide - 0
find_intersecting_snps.py input files
#81 opened by Liying1996 - 0
Error in bam2h5.py
#82 opened by danliangunc - 9
- 2
- 1
WARNING: vcf.c:262: some genotypes are unphased (delimited with '/' instead of '|')
#74 opened by sorrowripple - 1
- 0