ncbi/sra-human-scrubber
An SRA tool that takes as input local fastq file from a clinical infection sample, identifies and removes any significant human read, and outputs the edited (cleaned) fastq file that can safely be used for SRA submission.
ShellNOASSERTION
Issues
- 2
HRRT on ONT data
#30 opened by cimendes - 2
How to tell if this has been run on a sample
#29 opened by mbhall88 - 0
print version # and exit option
#28 opened by chrisgulvik - 4
- 11
- 1
- 3
Can't use stdin and keep spots
#24 opened by mbhall88 - 5
Memory usage
#25 opened by bede - 7
Paired-end Reads
#6 opened by bioinfoMMS - 1
Out of space (/tmp) during fastq_to_fasta.py
#22 opened by accopeland - 3
- 1
custom database
#20 opened by manolis2023 - 3
Source code?
#21 opened by accopeland - 9
Option to specify the number of cores used?
#9 opened by rpetit3 - 2
please version the database
#5 opened by pvanheus - 3
Allow DB location to be specified
#10 opened by pvanheus - 2
- 2
Please add a license
#11 opened by rpetit3 - 9
Cannot process .gz files
#4 opened by kevinlibuit - 3
Mirroring Docker container on Quay.io?
#7 opened by rpetit3 - 6
Source release?
#1 opened by olsonanl - 1
There is no code here.
#2 opened by kevinlibuit - 1
Some lines left without quality scores
#3 opened by kevinlibuit