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Hi all,
first some background:
it seems like [sourmash](https://github.com/dib-lab/sourmash) is going to be a thing; I'm building it into a metagenomics data exploration tool, and it's already integ…
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./squeakr-count -f -k 28 -s 20 -t 1 -o ./ S008_20180206001-8_ffpedna_pan-cancer-v1_5717_S8_R2_001.fq
Reading from the fastq file and inserting in the QF
Segmentation fault (core dumped)
head -8 …
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I was wondering if it was worth looking at within signature differences to get an idea of the diversity of hashes? i.e using Jaccard, Hammings or Lenvestein metrics.
I need to check my understanding…
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Hi,
I am not able to compile Jellyfish on an IBM POWER8 system with gcc. It seems that the raw assembly instructions in rectangular_binary_matrix.hpp are not compatible -- to build and run successf…
jlost updated
6 years ago
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This was first mentioned on Slack by Sorina: https://iqbalgroup.slack.com/archives/C5MANUB17/p1504131606000222
This link shows benchmarking of different hash functions for random and sequential int…
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I'm running a 3 iteration search job and it crushed towards the end of the prefiltering of the last iteration. I tried to run again the same command in order to resume from where I stopped, but it see…
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Q: How many sourmash hashes does it take to classify a genome uniquely?
If the answer is 1, then there is a single hash that identifies this specific genome! :tada:
If the answer is “you cannot…
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Dear CMash team,
I am wondering the CMash is a metric, meaning, is CMash (A, B) the same with CMash (B, A), or CMash (A, B) + CMash (B, C) >= CMash (A, C), that is the last 2 rules of metric space:…
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A first pass of the JSON schema is in the Mash repo:
https://github.com/marbl/Mash/blob/master/src/mash/schema.json
For now, I put k-mers as a separate array parallel to hashes rather than an arra…
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Hello,
I'm running this workflow:
```golang
param (
// S3 path to 10x folder
tenx string
// Full s3 file location to put the sourmash signature
output string
//…