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Load Uniparc sequences from RestAPI
#50
ChrisMoth
opened
2 months ago
0
Add Alphamissense scores to SQL database
#49
ChrisMoth
opened
5 months ago
0
Add MANE cross-references
#48
ChrisMoth
opened
6 months ago
1
Replace Bio:pairwise2 with Pairwise Aligner in PDBMapAlignment.py
#47
ChrisMoth
opened
1 year ago
0
Cross reference uniprot IDs to ALL Sifts-aligned PDBs, not just PDB IDs from idmapping
#46
ChrisMoth
opened
1 year ago
0
Pdbmap complex
#45
ChrisMoth
closed
1 year ago
0
Replace sys.exit() across all modules
#44
ChrisMoth
opened
2 years ago
0
VEP echo function broken
#43
ChrisMoth
opened
2 years ago
0
With PFAM server going away, create domain graphics locally
#42
ChrisMoth
opened
2 years ago
0
Streamline Uniprot IdMapping handling to cope with versioned ENST0000*.N transcript IDs
#41
ChrisMoth
opened
2 years ago
0
Move pathprox "complex" code to PDBMapComplex.py Sort out bugs in complex processing
#40
ChrisMoth
opened
2 years ago
0
Integrate new Gnomad Mitochondrial data
#39
ChrisMoth
opened
2 years ago
0
SIFTS and PDB related database must have case insensitive chain designations
#38
ChrisMoth
opened
2 years ago
0
Tolerate abbreviated vcf files
#37
ChrisMoth
closed
2 years ago
0
Change Uniparc schema for better MariaDB compatability; Add human-only table
#36
ChrisMoth
closed
2 years ago
0
Make VCF parser compatible with ENSEMBL VEP format, 4 column only, vcf files.
#35
ChrisMoth
closed
2 years ago
0
VEP command line should not have hard coded version 100
#34
ChrisMoth
opened
2 years ago
0
Convert PyVCF lib to Python3, and integrate into PDBMap.
#33
ChrisMoth
opened
2 years ago
0
Gnomad Variants: Identify and reject transcripts which don't map to Chrom1-22/X/Y/MT
#32
ChrisMoth
opened
2 years ago
0
Style Code to match PEP 8
#31
ChrisMoth
opened
2 years ago
0
Alphafold improvements
#30
ChrisMoth
closed
2 years ago
0
Inquiry on the Usage
#29
JustinaXie
closed
2 years ago
3
Development
#28
ChrisMoth
closed
3 years ago
0
Add AlphaFold library module #26
#27
ChrisMoth
closed
3 years ago
0
Integrate AlphaFold2 Model support
#26
ChrisMoth
closed
2 years ago
0
Document pdbmap.py --load_vcf; comment .slurm scripts
#25
ChrisMoth
opened
3 years ago
0
Neanderthal fixes
#24
ChrisMoth
closed
3 years ago
0
2020 rework reports
#23
ChrisMoth
closed
3 years ago
0
Add access to gene ID numbers from uniprot idmapping
#22
ChrisMoth
opened
3 years ago
0
Neanderthal fixes
#21
ChrisMoth
closed
3 years ago
0
Neanderthal fixes
#20
ChrisMoth
closed
3 years ago
0
Handle Selenomethionine
#19
ChrisMoth
closed
2 years ago
1
Development
#18
ChrisMoth
closed
3 years ago
0
2020 complexes
#17
ChrisMoth
closed
3 years ago
0
Create biounits from mmCIF files, in biopython.
#16
ChrisMoth
opened
4 years ago
0
VCF file loading: Refactor files, enhance SQL schema, improve performance.
#15
ChrisMoth
closed
2 years ago
0
Refactor Transcript handling for complexes; SQL interfaces; globals
#14
ChrisMoth
closed
4 years ago
0
Localize SQL calls to a class that automatically opens/closes based on global configuration
#13
ChrisMoth
closed
3 years ago
0
Create tests to validate pdbmap installation, enviornment, and basic return values.
#12
ChrisMoth
opened
4 years ago
0
Implement Sifts-uniprot-isoform specific alignments and protein chain's 'best uniprot ID'
#11
ChrisMoth
closed
2 years ago
0
Refactor PDBMapTranscript into a heirarchy of transcript types
#10
ChrisMoth
closed
2 years ago
0
Allow hot-swtiching of EnsEMBL GRCh3[78] genomes and Database versions
#9
ChrisMoth
closed
2 years ago
0
Merge python3 again to pick up new idMapping schema and .gtignore
#8
ChrisMoth
closed
5 years ago
0
Python3
#7
ChrisMoth
closed
5 years ago
0
Build up pdbmap_v14
#6
ChrisMoth
closed
2 years ago
0
Port to Python 3
#5
ChrisMoth
closed
4 years ago
0
PDBMapAlignment Incomatible with applications
#4
ChrisMoth
closed
2 years ago
0
Alignment of modbase and swiss models to transcripts was incorrect in 0.5% fo cases
#3
ChrisMoth
closed
2 years ago
0
NM_ refseq IDs were reformatted in .xlsx spreadsheet for case UDN956557
#2
ChrisMoth
closed
2 years ago
0
master branch of CaprLab/pdbmap is far behind MikeSivley/pdbmap branch aspackage
#1
ChrisMoth
closed
6 years ago
1
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