Publication date
March 2018
DOIAbstract
3.0.1 Update tabix calls to directly use query_full (solves GRCh38 contig name issues)
3.0.1 Update tabix calls to directly use query_full (solves GRCh38 contig name issues)
Migrates all Tabix and Bio::DB::Sam to Bio::DB::HTS::Tabix and Bio::DB::Sam Cleans up install note...
Correct read sorting during collection of DI events. Caused some events to be split into many and ot...
Generation of the counts files can now be on a per-sample process, separated from the full ascat.pl ...
3.3.1 samtools and htslib updated to 1.7 Bio::DB::HTS updated to 2.10, fixes error with GRCh38 cont...
Handles species names with spaces modified checks for species, assembly and checksu
Fix in underlying pindel algorithm to allow complex events with inserted sequence longer than the de...
Stable release for working with BAMs passed through mismatch QC Works with data not handled in this ...
Considerable improvement to speed by loading cache file into in memory interval tree. Please review...
The input step (which runs pindel_input_gen.pl) is now significantly faster (~50% shorter run time)....
Bug fix to bb_vcf_to_ascat_cn.pl which crashed when there were regions which had no copynumber value...
Sorting within a records fields cleaned up, primarily ensures filter and info column is consistently...
A silent failure in the construction of pindel alignment BAM files was introduced in v3.0.0 resultin...
3.9.0 Masking implemented to remove calls from pindel output where 'ref == alt'. These complex inde...
Improved sample metadata validation: require is_normal_for_donor column in input checks for each do...
1.8.0 Overlapping reads now handled Updates to licenese headers and contact information Support for...
Migrates all Tabix and Bio::DB::Sam to Bio::DB::HTS::Tabix and Bio::DB::Sam Cleans up install note...
Correct read sorting during collection of DI events. Caused some events to be split into many and ot...
Generation of the counts files can now be on a per-sample process, separated from the full ascat.pl ...
3.3.1 samtools and htslib updated to 1.7 Bio::DB::HTS updated to 2.10, fixes error with GRCh38 cont...
Handles species names with spaces modified checks for species, assembly and checksu
Fix in underlying pindel algorithm to allow complex events with inserted sequence longer than the de...
Stable release for working with BAMs passed through mismatch QC Works with data not handled in this ...
Considerable improvement to speed by loading cache file into in memory interval tree. Please review...
The input step (which runs pindel_input_gen.pl) is now significantly faster (~50% shorter run time)....
Bug fix to bb_vcf_to_ascat_cn.pl which crashed when there were regions which had no copynumber value...
Sorting within a records fields cleaned up, primarily ensures filter and info column is consistently...
A silent failure in the construction of pindel alignment BAM files was introduced in v3.0.0 resultin...
3.9.0 Masking implemented to remove calls from pindel output where 'ref == alt'. These complex inde...
Improved sample metadata validation: require is_normal_for_donor column in input checks for each do...
1.8.0 Overlapping reads now handled Updates to licenese headers and contact information Support for...
Migrates all Tabix and Bio::DB::Sam to Bio::DB::HTS::Tabix and Bio::DB::Sam Cleans up install note...
Correct read sorting during collection of DI events. Caused some events to be split into many and ot...
Generation of the counts files can now be on a per-sample process, separated from the full ascat.pl ...
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