Hail Discussion

Topic	Replies	Views	Activity
I cannot access the VEP, Annotation DB, or Datasets API buckets Hail Query & hailctl Due to changes in the price of transferring data from a Google Cloud Storage multi-regional bucket to a regional bucket, we had to move our VEP reference data, Annotation DB datasets, and Datasets API datasets, into regi…	1	196	February 28, 2024
Welcome to the Hail community! Updates	0	3909	August 26, 2016
Exporting Hail MT to VCF - Missing Genotypes Hail Query & hailctl	9	20	May 7, 2024
VDS, VCF and VQSR Hail Query & hailctl	1	38	May 7, 2024
Hl.vds.new_combiner gives unexpected TypeError Hail Query & hailctl	2	20	May 7, 2024
Most efficient way to filter and densify VDS Hail Query & hailctl	2	47	May 7, 2024
Ploidy error when trying to extract X-chromosome snps Hail Query & hailctl	2	22	May 7, 2024
IllegalArgumentException Hail Query & hailctl	1	37	May 6, 2024
Ld_prune() reference Hail Query & hailctl	1	28	May 6, 2024
No module named 'hail.experimental.vcf_combiner' Hail Query & hailctl	1	36	May 2, 2024
Are 0/0 genotypes counted as defined in hl.is_defined(mt.GT)? And are NA genotypes counted as missing in hl.is_missing(mt.GT)? Hail Query & hailctl	1	50	April 26, 2024
UK Biobank RAP - Generating Summary File from Variant QC Hail Query & hailctl	3	73	April 26, 2024
Aggregating a numeric array Hail Query & hailctl	2	166	April 11, 2024
Distributing import_vcf and multi_way_union_mts across Spark workers Hail Query & hailctl	0	52	April 11, 2024
Outputting sample IDs for multi allelic sites Hail Query & hailctl	5	110	April 10, 2024
Error in load_dataset() Hail Query & hailctl	3	55	April 10, 2024
Trinucleotide Count Hail Query & hailctl	0	66	April 1, 2024
Hail Tutorial Error Hail Query & hailctl	0	71	March 31, 2024
Unable to write matrix tables to MinIO S3 storage Hail Batch & General Cloud	1	84	March 29, 2024
Unable to connect to Jupyter notebook Hail Query & hailctl	2	140	March 27, 2024
Is there a more computationally efficient way to get a single variant from VDS? Hail Query & hailctl	3	106	March 27, 2024
REF ALT miss-matching after split multi-allelic lines Hail Query & hailctl	4	101	March 27, 2024
Understanding how hwe_normalized_pca works Hail Query & hailctl	2	128	March 26, 2024
NA causes export errors out Hail Query & hailctl	4	97	March 26, 2024
Write compressed Tables/Matrices Hail Query & hailctl	1	87	March 25, 2024
Best practices for setting up GCP billing for Hail for the first time Hail Batch & General Cloud	1	134	March 21, 2024
Unable to flatten sample/gene counts for table export Hail Query & hailctl	4	415	March 21, 2024
Arrangement of the scores output for hl.pca Hail Query & hailctl	4	88	March 18, 2024
How to add new columns in Hail table? Hail Query & hailctl	4	593	March 12, 2024
Slow Terra Output Hail Batch & General Cloud	2	123	March 11, 2024

I cannot access the VEP, Annotation DB, or Datasets API buckets

Due to changes in the price of transferring data from a Google Cloud Storage multi-regional bucket to a regional bucket, we had to move our VEP reference data, Annotation DB datasets, and Datasets API datasets, into regi…