index
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bh20-seq-resource
analysis-refactor
fasta-subset-from-query
generate-cwl
master
new_assembly_method_field
pangenome_workflow_abpoa
upload-download-status
uuid-for-resource
yamlfa2ttl
Tool to upload SARS-CoV-2 sequences to BH20 Arvados instance and orchestrate analysis
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2020-08-28
local QC is optional
AndreaGuarracino
2020-08-28
added control (locally and in the validation) that sample_id has to be the sa...
AndreaGuarracino
2020-08-28
qc_fasta returns also the seq_type; verified that only one FASTA is sent at a...
AndreaGuarracino
2020-08-28
fixed local QC, modifying the regex for FASTA/FASTQ to be more general
AndreaGuarracino
2020-08-27
updated dependency from clustalw to minimap2; the genbank script no longer cr...
AndreaGuarracino
2020-08-26
Increase RAM for odgi-build-from-spoa-gfa
Peter Amstutz
2020-08-26
updated parameter name
AndreaGuarracino
2020-08-26
added option in the genbank script to ignore (already validated) IDs; code cl...
AndreaGuarracino
2020-08-26
typos in the code; little code refactoring
AndreaGuarracino
2020-08-26
Docs
Pjotr Prins
2020-08-26
Fix underscores
Pjotr Prins
2020-08-25
Increase RAM requirement for sort_fasta_by_quality_and_len
Peter Amstutz
2020-08-25
Using Arvados
Pjotr Prins
2020-08-25
the YAML/FASTA pair is not created for samples where at least one mandatory f...
AndreaGuarracino
2020-08-24
fixed protocol for the dictionary entries that caused validation problems
AndreaGuarracino
2020-08-24
Fix dependency conflict with PyShExC
Peter Amstutz
2020-08-24
Adding meta keywords to HTML
Pjotr Prins
2020-08-24
genbank script documented in blog
Pjotr Prins
2020-08-24
reverted the relaxation on the location attribute
AndreaGuarracino
2020-08-24
Merge pull request #102 from AndreaGuarracino/patch-4
Pjotr Prins
2020-08-24
Genbank upload
Pjotr Prins
2020-08-24
Add note on most fields being optional
Pjotr Prins
2020-08-24
Images
Pjotr Prins
2020-08-23
More info
Pjotr Prins
2020-08-23
Textual changes
Pjotr Prins
2020-08-23
genbank/sra scripts update to be more generic with the specimen sources
AndreaGuarracino
2020-08-23
added new countries and speciesman sources: fixed few country entries
AndreaGuarracino
2020-08-22
genbank/sra scripts updated to read the dictionaries in a more general way
AndreaGuarracino
2020-08-22
lots of new dictionary terms
AndreaGuarracino
2020-08-22
Generated
Pjotr Prins
2020-08-22
Relaxing the location attribute
Pjotr Prins
2020-08-22
FASTQ in capitals
Pjotr Prins
2020-08-22
More on contacting
Pjotr Prins
2020-08-22
Repositioning content
Pjotr Prins
2020-08-22
Reorganize footer
Pjotr Prins
2020-08-22
Reworded blurb
Pjotr Prins
2020-08-22
Small text fixes
Pjotr Prins
2020-08-22
guix-deploy script
Pjotr Prins
2020-08-20
Update links to reflect latest workflow
Peter Amstutz
2020-08-19
Fix output parameters
Peter Amstutz
2020-08-19
Scaling pangenome generation
Peter Amstutz
2020-08-19
Consolidate steps to scale graph generation workflow
Peter Amstutz
2020-08-19
Merge pull request #101 from AndreaGuarracino/patch-3
Peter Amstutz
2020-08-19
used builtin hashlib md5 for the deduplication step
AndreaGuarracino
2020-08-19
Merge pull request #100 from AndreaGuarracino/patch-3
Peter Amstutz
2020-08-19
integrated the deduplication step in the sorting by quality and length script
AndreaGuarracino
2020-08-05
Merge pull request #99 from AndreaGuarracino/patch-2
Peter Amstutz
2020-07-27
added in the FAQ three questions from the BCC 2020 attendees
AndreaGuarracino
2020-07-27
added workflow to sort a multifasta by quality and length, and added the over...
AndreaGuarracino
2020-07-27
added spoa workflow in a low memory consumption mode
AndreaGuarracino
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