chanzuckerberg shasta issues

chanzuckerberg / shasta

[MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads

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Update configs with detangle 2, add oldGuppy

#198 rlorigro closed 4 years ago
0
Running E.coli genome denovo assembly

#197 ytalhatamer closed 4 years ago
4
Update GenerateConfig.py to incorporate automatic parameter estimation of some parameters

#196 bagashe closed 4 years ago
0
Fix Reads N50 computation.

#195 bagashe closed 4 years ago
0
More parameters for PeakFinder

#194 rlorigro closed 4 years ago
1
Undo auto-tuning of MinHash.minBucketSize and MinHash.maxBucketSize

#193 bagashe closed 4 years ago
0
Updates to Github Actions workflow and MakeRelease.html

#192 bagashe closed 4 years ago
0
Log software versions in the InstallPrereq-* scripts.

#191 bagashe closed 4 years ago
0
heterozygous plant and k-mer list

#190 dcopetti closed 4 years ago
4
Short contigs from Shasta

#189 Yechao94 closed 4 years ago
10
Limited automation of Align parameters

#188 rlorigro closed 4 years ago
0
Allow relative path in --Assembly.consensusCaller.

#187 bagashe closed 4 years ago
0
GUI improvements for "Assess Alignments" page

#186 rlorigro closed 4 years ago
1
Small changes to GenerateConfig.py & GenerateFeedback.py scripts.

#185 bagashe closed 4 years ago
0
Dead end sampling and assessing maxDrift and maxSkip

#184 rlorigro closed 4 years ago
0
Handle empty downsampled sequences before attempting a SeqAn alignment.

#183 bagashe closed 4 years ago
0
Best effort auto-selection of MinHash.minBucketSize & MinHash.maxBucketSize if values are not provided.

#182 bagashe closed 4 years ago
1
Minor improvements/fixes in the HTTP Server

#181 bagashe closed 4 years ago
2
Fixes HTTP server timeout issue for BOOST_VERSION > 106600.

#180 bagashe closed 4 years ago
0
Fixes bugs with code that adjusts coverage based on Reads.desiredCoverage

#179 bagashe closed 4 years ago
0
Reduce coverage to desired value if applicable.

#178 bagashe closed 4 years ago
0
Reduce coverage to the desired value if applicable.

#177 bagashe closed 4 years ago
4
Make data members of the Reads class, private.

#176 bagashe closed 4 years ago
0
Allow an empty assembly directory to exist before the assembly starts.

#175 bagashe closed 4 years ago
0
[Refactor] Reads class

#174 bagashe closed 4 years ago
0
A question about ONT data from Guppy v1.8.1

#173 dxkeac closed 4 years ago
4
Shasta integration with snakemake

#172 BCArg closed 4 years ago
8
Script to generate starter config and script to provide feedback.

#171 bagashe closed 4 years ago
2
New page for browser: Assess alignments

#170 rlorigro closed 4 years ago
5
Fixed typo/bug in peak finder

#169 rlorigro closed 4 years ago
0
Removed unused variable

#168 rlorigro closed 4 years ago
0
Reduce peak memory usage

#167 bagashe closed 4 years ago
1
Added handling for when 2nd peak is most persistent

#166 rlorigro closed 4 years ago
0
Added PeakFinder and integrated into Assembler

#165 rlorigro closed 4 years ago
1
Document the Kernel too old error and how to deal with it.

#164 bagashe closed 4 years ago
0
Support building Shasta on ARM64 along with X86_64.

#163 bagashe closed 4 years ago
0
Unreserve data-structures once they have been populated.

#162 bagashe closed 4 years ago
0
Multi-read graph display, with more layout options

#161 rlorigro closed 4 years ago
0
[Bugfix] Conditional storage and usage of compressed alignments.

#160 bagashe closed 4 years ago
0
Added highlighting and display parameters to LocalReadGraph browser page

#159 rlorigro closed 4 years ago
0
[Bugfix] Install the portable version of SPOA when cpu dispatching is not used.

#158 bagashe closed 4 years ago
0
Illegal instruction (was: cmake error - build from source on linux centOS6)

#157 zhenzhenyang-psu closed 4 years ago
19
assembly parameters for low depth of coverage

#156 zhenzhenyang-psu closed 4 years ago
4
Log peak memory usage.

#155 bagashe closed 4 years ago
0
Avoid undefined behavior in LowHash0 computation.

#154 bagashe closed 4 years ago
0
Assembled segment length maxed out at 2-3 Mb

#153 EvoEpi closed 4 years ago
6
Post release cleanup.

#152 bagashe closed 4 years ago
0
Bump release number. Prepare for release.

#151 bagashe closed 4 years ago
0
short genome reconstruction

#150 BioRB closed 4 years ago
5
[Bugfix] `name` attribute for radio button was not set correctly.

#149 bagashe closed 4 years ago
0

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