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greenelab
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2022-microberna
A pipeline to generate a compendia of bacterial and archaeal RNA-seq data
BSD 3-Clause "New" or "Revised" License
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add a license - we should have one!
#15
cgreene
closed
1 year ago
0
documenting whitelisting IP address by ENA for fastq download from ftp
#14
taylorreiter
opened
2 years ago
0
new code for best reference species selection
#13
taylorreiter
opened
2 years ago
0
brainstorming about identifying contaminant pairs
#12
taylorreiter
opened
2 years ago
0
add `--no-check-certificate` to wget commands
#11
taylorreiter
opened
2 years ago
0
refactor pipeline to remove charcoal decontamination steps, and other cleanup
#10
taylorreiter
closed
2 years ago
2
check md5sums of downloaded fastq files
#9
taylorreiter
closed
2 years ago
1
Add results from B. altitudinis tests
#8
taylorreiter
closed
2 years ago
3
switch from experiment accession to run accession for rnaseq samples
#7
taylorreiter
closed
2 years ago
1
tool: annogesic
#6
taylorreiter
opened
2 years ago
0
references for compendia analyses
#5
taylorreiter
opened
2 years ago
0
recording puffaligner stdout
#4
taylorreiter
opened
2 years ago
1
references for pangenomes in the construction of expression compendia/pangenome mapping
#3
taylorreiter
opened
2 years ago
1
investigate whether salmon k-mer size is parameterized
#2
taylorreiter
opened
2 years ago
2
[MRG] update readme to reflect some of the project goals, start reference transcriptome pipelines
#1
taylorreiter
closed
2 years ago
1