-
>>> import os,sys
>>> import pandas as pd
>>> import numpy as np
>>> import anndata as ad
>>> import snaf
>>> df = pd.read_csv('/home/ry-03/data/SNAF/altanalyze_output/ExpressionInput/counts.orig…
-
Hello, I am having an issue using deephlapan.
I used the docker installation on MacOS. When I run the program on a test peptide or a file of several peptides, it stop at the same step.
First, I get…
-
-
Hi there,
As stated in the title - does pvacfuse derive the START/STOP of the fusions from it's own build of reference genome, or is that information taken from the output of AGFusion? I am asking …
-
Facing almost similar issue #629 when running pvacseq using docker via snakemake as part of the pipeline.
**pVACtools Version / Docker Image**
4.1.0 - running via Singularity (v3.8.6)
**Operati…
-
To reduce the footprint of larger workflows it's very useful if temporary files (which are marked as such) could be **automatically** deleted once they are not used anymore. Yes, this breaks reruns, b…
-
Hello,
Is there any plans to implement this workflow https://github.com/griffithlab/anchor_huiming_etal_2023 in pvacseq, described in the https://www.science.org/doi/full/10.1126/sciimmunol.abg2200…
-
Hi,
We (@ali-harasty and myself) are getting confused by some of the results in the final neoantigen results table e.g.`MHC_Class_I_all_epitopes_ccf_ref` file.
Some of the mutations makes sense …
-
https://www.ncbi.nlm.nih.gov/pubmed/26940869
- [ ] [create a issue on datahub](https://github.com/cBioPortal/datahub/issues/new) before curating a study (one issue per study) and copy this checklis…
jjgao updated
5 months ago
-
Facing almost similar issue https://github.com/griffithlab/pVACtools/issues/692 when running pvacseq using docker via snakemake as part of the pipeline. I started the run for six samples. However, one…