please explain
Nobody has claimed this yet.
- Dominant language
- C
- Stars
- 207
- Forks
- 61
- PR merge metrics
- No merged PRs in 30d
Description
~/betterSoftware/EIG/bin/smartpca.perl
-i samples.eigen.geno
-a samples.eigen.snp
-b samples.eigen.ind
-o test.pca
-p test
-e test.eigan.eval
-l test.log
smartpca -p test.pca.par >test.log
fatalx:
bad chrom: LT635612.1
sh: line 1: 4589 Aborted (core dumped) smartpca -p test.pca.par > test.log
ploteig -i test.pca.evec -c 1:2 -p -x -y -o test.xtxt
evec2pca.perl 10 test.pca.evec samples.eigen.ind test.pca
Contributor guide
No contributing guide indexed for this repository
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start by reproducing the shown smartpca -p test.pca.par command and inspect the chromosome value LT635612.1 in the input data. Review the smartpca, ploteig, and evec2pca.perl entry points to determine why that value is rejected; done means explaining the failure and identifying the required input or parameter change.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- c, perl, shell
- Domain
- bioinformatics, cli
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 20/100