Human 1.11.0
haowang-bioinfo
released this
07 Feb 07:25
·
1004 commits
to main
since this release
- Fixes (PR #351):
- remove duplicated reactions, as reported in #344
- Fixes (PR #343):
- sync met ids with new comp abbreviations in
metabolites.tsv
to resolve branch conflict while merging #341
- sync met ids with new comp abbreviations in
- Features (PR #341):
- modify compartment abbreviations (
Extracellular
: s->e,Boundary
: x->b,Peroxisome
: p->x), as discussed in #314
- modify compartment abbreviations (
- Style (PR #340):
- refine README
- Features (PR #339):
- continue on improving metabolite annotation with CHEBI ids
- Features (PR #338):
- refactor
exportTsvFile
function with options of.txt
output format and double-quote free mode
- refactor
- Features (PR #337):
- remove generic (de)phosphorylation reactions and 558 associated genes, as suggested by #336
- Fixes (PR #334):
- Features (PR #332):
- refactor GitHub actions with more robust and reproducible setup, by replacing the direct usage of Python and installation of packages with the opencobra/memote container from DockerHub
- Features/Fixes (PR #331):
- reformat metabolic task files
- change all metabolic task
.xlsx
files in/data/metabolicTasks
to.txt
format - correct the compartment of
NEFA blood pool in
from Boundary to Extracellular ([x]
to[s]
) for addressing #311
- change all metabolic task
- reformat metabolic task files
- Features (PR #329):
- add CHEBI:53019 'glycan G00008' to MAM00154r, as clarified in #328
- Fixes (PR #327):
- empty
Should Fail
column to Cellfie metabolic tasks, this was mentioned in #280
- empty
- Fixes (PR #325):
- Fixes (PR #296):
- standardize
references
field by systematically implementing PMID and separating entries by semicolon, as proposed in #259
- standardize