raphael-group / chisel

CHISEL -- Copy-number Haplotype Inference in Single-cell by Evolutionary Links

raphael-group/chisel Issues

Error while plotting!
Updated 8 months ago
Questions about single-cell barcoded BAM, PREFIX and the "CB:Z:" tag
Updated a year ago
Using phased SNPs with chisel_nonormal
Closed a year ago1
Noisy RDR and CN calls
Closed 2 years ago4
Doesn't work with hg38 reference genome
Closed a year ago5
GH action tests not passing due to missing python cache
Updated 2 years ago
Question about VCF file
Updated 2 years ago1
another: AssertionError: There is a bin with a BAF shift > 0.5, likely BAF was not mirrored between 0 and 0.5
Closed 3 years ago2
Failed to read from standard input in Counting phased SNPs in matched normal
Closed 3 years ago4
-r option in chisel_cloning isn't recognized
Closed 3 years ago2
TypeError: unhashable type: 'dict'
Closed 4 years ago2
No return in Call.py and AssertionError: There is a bin with a BAF shift > 0.5, likely BAF was not mirrored between 0 and 0.5
Closed 4 years ago5
pseudo matched-normal
Closed 4 years ago14
Empty baf.tsv
Closed 4 years ago2
AssertionError: There is a bin with a BAF shift > 0.5, likely BAF was not mirrored between 0 and 0.5
Closed 4 years ago8
Standard single-cell DNA-seq data
Closed 4 years ago17
Starting from a cell-by-bin read count matrix
Closed 4 years ago3
taskset not found
Closed 4 years ago1
Lacking column names in intermediate files
Closed 4 years ago2
Python3.x support
Closed 4 years ago3
Improvement suggestions for figures
Closed 4 years ago4
Assertions without error messages
Closed 4 years ago2
Hardcoded list of chromosomes
Closed 4 years ago2
How to form pseudo match-normal sample?
Closed 4 years ago3
BAFs don't seem to agree with CNAs
Closed 4 years ago2
CHISEL failing on Combiner.py ?
Closed 5 years ago3