Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / snayfach/uhgv issues and pull requests

#75 - How to cite UHGV?

Issue - State: open - Opened by Sanrrone about 1 month ago

#74 - MCL-Cluster

Issue - State: closed - Opened by Xuyang-Feng 7 months ago - 1 comment

#73 - checkv database version

Issue - State: open - Opened by wen1112 7 months ago

#72 - taxon_alias

Issue - State: open - Opened by zhixuanyan 9 months ago

#70 - representative genomes for vOTUs

Issue - State: open - Opened by ChaoXianSen 9 months ago

#68 - uhgv-db-v0.4

Issue - State: open - Opened by ChaoXianSen 9 months ago - 1 comment

#67 - uhgv-tools classify run error

Issue - State: closed - Opened by ChaoXianSen 10 months ago - 4 comments

#66 - how many sequences in the UHGV databae ?

Issue - State: closed - Opened by ChaoXianSen 11 months ago - 2 comments

#65 - The address of this article

Issue - State: closed - Opened by qkqk-hub 12 months ago - 1 comment

#64 - some questions baout result file 'taxon_info.tsv '

Issue - State: closed - Opened by ChaoXianSen about 1 year ago - 2 comments

#63 - Error: One or more diamond tasks failed to run

Issue - State: open - Opened by OPeterJ about 1 year ago - 6 comments

#62 - Details on family-level clustering for the UHGV repo

Issue - State: open - Opened by joacjo about 1 year ago

#61 - Phanta implementation and viromes other than the gut?

Issue - State: closed - Opened by mhmism about 1 year ago - 1 comment

#60 - Not writing output files but still says 'Success!'

Issue - State: closed - Opened by haleyhallowell over 1 year ago - 2 comments

#59 - Cannot download uhgv-toolkit

Issue - State: closed - Opened by haleyhallowell over 1 year ago - 8 comments

#58 - Prepare final database for classify tool

Issue - State: closed - Opened by snayfach over 1 year ago

#57 - Phanta analysis

Issue - State: closed - Opened by snayfach almost 2 years ago

#56 - Inconsistent host prediction within viral clusters

Issue - State: closed - Opened by snayfach almost 2 years ago

#55 - Upload and share results from Tamburini et al.

Issue - State: closed - Opened by snayfach almost 2 years ago

#54 - Filter out non-viruses

Issue - State: closed - Opened by snayfach almost 2 years ago - 1 comment

#53 - Metadata files

Issue - State: closed - Opened by snayfach almost 2 years ago

#52 - Population genomics

Issue - State: closed - Opened by snayfach almost 2 years ago

#51 - Main figures

Issue - State: closed - Opened by snayfach almost 2 years ago

#50 - Pathobionts

Issue - State: closed - Opened by snayfach almost 2 years ago

#49 - Export votu_reps datasets

Issue - State: closed - Opened by snayfach almost 2 years ago

#48 - Add DGR annotations

Issue - State: closed - Opened by snayfach almost 2 years ago

#47 - README tracker

Issue - State: closed - Opened by snayfach almost 2 years ago

#46 - Empty GFF files for many genomes

Issue - State: closed - Opened by snayfach almost 2 years ago

#45 - Add antiCRISPR annotations

Issue - State: closed - Opened by snayfach almost 2 years ago

#44 - Add padloc annotations

Issue - State: closed - Opened by snayfach almost 2 years ago - 1 comment

#43 - Run .chmod script

Issue - State: closed - Opened by snayfach almost 2 years ago

#42 - Missing proteins for 103 genomes, all mq+

Issue - State: closed - Opened by snayfach almost 2 years ago - 1 comment

#39 - Genome > Sample > Phenotypes

Issue - State: closed - Opened by snayfach almost 2 years ago

#38 - Flag outliers in viral clusters using genome size

Issue - State: closed - Opened by snayfach almost 2 years ago

#37 - Host genomes metadata

Issue - State: closed - Opened by snayfach almost 2 years ago - 1 comment

#36 - Kmer freq UHGV-2246620

Issue - State: closed - Opened by snayfach almost 2 years ago - 1 comment

#35 - Lifestyle

Issue - State: closed - Opened by snayfach almost 2 years ago

#34 - Figure ideas

Issue - State: closed - Opened by snayfach almost 2 years ago

#33 - Setup Lawrencium

Issue - State: closed - Opened by snayfach almost 2 years ago

#32 - Display a circular genome to highlight diverse annotations

Issue - State: closed - Opened by snayfach almost 2 years ago

#31 - Host Range Analysis

Issue - State: closed - Opened by snayfach almost 2 years ago

#30 - Show expansion relative to input datasets

Issue - State: closed - Opened by snayfach almost 2 years ago

#29 - Safety profile

Issue - State: closed - Opened by snayfach almost 2 years ago

#28 - Which genomes used for which analyses

Issue - State: closed - Opened by snayfach almost 2 years ago

#27 - Add FTP to vOTU table

Issue - State: closed - Opened by snayfach almost 2 years ago

#26 - Circular genome visualization

Issue - State: closed - Opened by snayfach almost 2 years ago

#25 - Code for phylogenomic/taxonomic classification of new sequences

Issue - State: closed - Opened by snayfach almost 2 years ago - 1 comment

#24 - Replace vOTU ids with UHGV ids in FASTA files

Issue - State: closed - Opened by snayfach almost 2 years ago

#23 - Sketch out Figure 1 dataset overview

Issue - State: closed - Opened by snayfach almost 2 years ago

#22 - Protocol for phylogenomics

Issue - State: closed - Opened by snayfach almost 2 years ago - 1 comment

#21 - Protocol for genome visualization

Issue - State: closed - Opened by snayfach almost 2 years ago

#20 - Create short/extended versions of metadata

Issue - State: closed - Opened by snayfach almost 2 years ago

#19 - Create phylogeny using marker genes or ViPTree

Issue - State: closed - Opened by snayfach almost 2 years ago

#18 - Read mapping statistics

Issue - State: closed - Opened by snayfach almost 2 years ago - 3 comments

#18 - Read mapping statistics

Issue - State: closed - Opened by snayfach almost 2 years ago - 3 comments

#16 - Functional annotations GFF file

Issue - State: closed - Opened by snayfach almost 2 years ago

#15 - Operational viral taxonomy

Issue - State: closed - Opened by snayfach almost 2 years ago - 1 comment

#14 - Get read mapping data from Bryan

Issue - State: closed - Opened by snayfach almost 2 years ago

#13 - Update https URL

Issue - State: closed - Opened by snayfach almost 2 years ago

#12 - Host prediction

Issue - State: closed - Opened by snayfach almost 2 years ago - 1 comment

#11 - Compare new datasets to UHGV (main figure)

Issue - State: closed - Opened by snayfach almost 2 years ago - 1 comment

#10 - Sipho/Podo/Myo-like

Issue - State: closed - Opened by snayfach almost 2 years ago

#9 - Distance to reference databases

Issue - State: closed - Opened by snayfach almost 2 years ago

#8 - Label if host prediction methods agree or not

Issue - State: closed - Opened by snayfach almost 2 years ago

#7 - Inconsistency contig_id and genome_id

Issue - State: closed - Opened by snayfach almost 2 years ago

#6 - Additional contig labeld

Issue - State: closed - Opened by snayfach almost 2 years ago - 1 comment

#5 - Taxonomy

Issue - State: closed - Opened by snayfach almost 2 years ago

#4 - Data resource

Issue - State: closed - Opened by snayfach almost 2 years ago

#3 - MySQL database

Issue - State: closed - Opened by snayfach almost 2 years ago

#2 - 2x check terminal repeats

Issue - State: closed - Opened by snayfach almost 2 years ago

#1 - 2x check Benler quality assignments

Issue - State: closed - Opened by snayfach almost 2 years ago