In-silico method written in Python and R to determine HLA genotypes of a sample. seq2HLA takes standard RNA-Seq sequence reads in fastq format as input, uses a bowtie index comprising all HLA alleles and outputs the most likely HLA class I and class II genotypes (in 4 digit resolution), a p-value for each call, and the expression of each class.
active 2023-08-21 → 2025-03-15 (UTC)
Activity over time
Daily event counts in the loaded window
Line chart, 573 days from 2023-08-21 to 2025-03-15. Pushes: 5 total, peak 3 in a day. Pull requests: 1 total, peak 1 in a day. Issues: 2 total, peak 1 in a day. Comments: 4 total, peak 2 in a day. Stars: 12 total, peak 1 in a day.
- Pushes
- Pull requests
- Issues
- Comments
- Stars
Stars, PRs, issues and forks are under-captured in the later part of this window. GH Archive progressively stopped capturing non-push events during 2026 — −95% or worse by the end of the window. Every series here except Pushes fades for that reason, so a decline above reflects the archive, not this repository. Pushes stay reliable throughout, so read them, and the contributor counts derived from them, as the real signal. Data health has the measurements.
Top contributors
Pushes, PRs, issues, reviews and comments — stars and forks excluded, so this is contribution rather than popularity
| Contributor | Contributions | Pushes | PRs | Comments |
|---|---|---|---|---|
| patricksorn | 6 | 5 | 1 | 0 |
| katahdin0 | 4 | 0 | 0 | 3 |
| Kaddea | 1 | 0 | 0 | 0 |
| powerinformatics | 1 | 0 | 0 | 1 |
Recent activity
Latest issues, pull requests and releases
- Issue comment#18katahdin02024-10-07 14:31error running seq2HLA on mRNAseq
- Issue#18katahdin02024-10-07 14:28error running seq2HLA on mRNAseq
- Issue comment#18katahdin02024-10-07 14:28error running seq2HLA on mRNAseq
- Issue comment#18katahdin02024-10-05 14:55error running seq2HLA on mRNAseq
- Issue#17Kaddea2024-02-09 10:50v2.3 failed run
- Issue comment#15powerinformatics2024-01-19 05:33version 2.3 error
- Pull request#14patricksorn2023-08-24 09:11
Totals cover only the window loaded into ClickHouse and count events, not GitHub's lifetime totals — 12 stars here means stars gained during the window, not the repo's star count.