sourmash-bio sourmash-examples issues

sourmash-bio / sourmash-examples

Example commands for doing sequence analysis with sourmash

https://sourmash-bio.github.io/sourmash-examples/

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detect potential contaminants in unassembled and uncorrected PacBio sequencing data

#22 ctb opened 2 years ago
0
test new example!

#21 ctb closed 2 years ago
1
[MRG] update readme and ignore

#20 ctb closed 2 years ago
0
[MRG] add github actions to auto-update site.

#19 ctb closed 2 years ago
0
ask for an example of how to use sourmash to do something

#18 ctb opened 2 years ago
0
test pr

#17 ctb closed 2 years ago
0
compare and visualize the similarity of many genomes using Average Nucleotide Identity (ANI)

#16 ctb opened 2 years ago
2
estimate how much of a metagenome sample can be mapped to reference genomes

#15 ctb opened 2 years ago
0
analyze a metagenome using 66,000 GTDB genomic representatives

#14 ctb opened 2 years ago
5
download and search 66,000 GTDB genomes with a query genome

#13 ctb opened 2 years ago
0
create a metagenome signature from shotgun sequencing reads

#12 ctb opened 2 years ago
0
create a signature by downloading and sketching a genome sequence

#11 ctb opened 2 years ago
0
test new example

#10 ctb closed 2 years ago
0
install sourmash

#9 ctb opened 2 years ago
0
a test of some yaml stuff, and also eventually a closed issue test

#8 ctb closed 2 years ago
0
use `genome_updater.sh` and `sketch fromfile` to build a custom database from NCBI

#7 ctb opened 2 years ago
1
create a conda environment with the latest version of sourmash

#6 ctb opened 2 years ago
0
search collection manifests directly

#5 ctb opened 2 years ago
2
use picklists and manifests to work with a small subset of a large database

#4 ctb opened 2 years ago
0
use `sourmash tax` to classify a metagenome

#3 ctb opened 2 years ago
0
create and use an LCA database for taxonomic analysis

#2 ctb opened 2 years ago
0
download, sketch, and search a collection of FASTA files

#1 ctb opened 2 years ago
0