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kango2
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ausarg
This repository contains information and code for AusARG genome assemblies.
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Assembling Lampropholis & Pogona Notes
#51
kiratalreja3
opened
2 months ago
1
Pogona
#50
kiratalreja3
closed
2 months ago
0
Lampropholis
#49
kiratalreja3
closed
2 months ago
0
Bassiana Manuscript to Close - ToDo
#48
kiratalreja3
closed
6 months ago
3
Future features to be added in NextFlow
#47
kiratalreja3
closed
6 months ago
3
18-22 Dec ToDo
#46
kiratalreja3
closed
6 months ago
3
Bassiana ToDo
#45
kiratalreja3
closed
6 months ago
4
Nextflow pipeline notes
#44
kiratalreja3
closed
6 months ago
9
Develop a simple tool to adjust annotations & depth using AGP
#43
kiratalreja3
closed
6 months ago
2
gap filling
#42
hp2048
closed
1 year ago
0
Interesting notes
#41
kiratalreja3
closed
6 months ago
5
annotation in juicebox
#40
kiratalreja3
closed
1 year ago
1
Re-run Bassiana YAHS with 1 Mb limit
#39
kiratalreja3
closed
1 year ago
1
Re-run TRASH with micro chromosome motifs
#38
kiratalreja3
closed
1 year ago
1
launch mitohifi
#37
kiratalreja3
closed
1 year ago
0
Run the new CRAQ tool
#36
kiratalreja3
closed
1 year ago
0
Annotation pipeline pre=processing
#35
kiratalreja3
closed
1 year ago
1
Nextflow pipeline
#34
kiratalreja3
closed
1 year ago
0
Integrate plotly in centromeres script
#33
kiratalreja3
closed
1 year ago
0
Bassiana Read Depth issue - observed low read depth
#32
kiratalreja3
closed
1 year ago
0
Presentation for Monday
#31
kiratalreja3
closed
1 year ago
0
Contact Andre for Pogona assembly state
#30
kiratalreja3
closed
1 year ago
0
Base call ONT data for Tiliqua, Bassiana, Lamphoris
#29
kiratalreja3
closed
1 year ago
1
Trinity assembly
#28
kiratalreja3
closed
1 year ago
1
SQL Automation Notes
#27
kiratalreja3
closed
1 year ago
3
Lampropholis HifiASM + Arima + YAHS assembly
#26
kiratalreja3
closed
1 year ago
1
AutoHiC on Bassiana YAHS assembly
#25
kiratalreja3
closed
1 year ago
1
Polish the Bassiana Assembly in permutations and re-run scaffolding
#24
kiratalreja3
closed
1 year ago
1
Compare YAHS, SALSA, GreenHill, Juicer assemblies for Bassiana HifiASM ptg assembly
#23
kiratalreja3
closed
1 year ago
1
Make a PBS version for Arima HiC pipeline
#22
kiratalreja3
closed
1 year ago
1
Evaluate NextPolish on Bassiana Assembly
#21
kiratalreja3
closed
1 year ago
0
Set up PlotSR for synteny plots
#20
kiratalreja3
closed
1 year ago
1
Set up Arima + YAHS pipeline for HiC scaffolding
#19
kiratalreja3
closed
1 year ago
3
Launch new tool "GreenHill" on Bassiana and Tiliqua
#18
kiratalreja3
closed
1 year ago
6
Tiliqua HifiASM centromere detection - TRASH round 2
#17
kiratalreja3
closed
1 year ago
1
Assembly evaluation script for depth calculation
#16
kiratalreja3
closed
1 year ago
1
Bassiana Assembly Juicer + 3D DNA + AutoHiC
#15
kiratalreja3
closed
1 year ago
7
GMM python script refinement
#14
kiratalreja3
closed
1 year ago
1
Refine and clean up pipline for automated QC from SRA SQL
#13
kiratalreja3
closed
1 year ago
1
Long Read QC data migrate to SQL
#12
kiratalreja3
closed
1 year ago
0
Illumina & Long Read QC plots
#11
kiratalreja3
closed
1 year ago
3
GM distribution for depth - Flagger/otherwise
#10
kiratalreja3
closed
1 year ago
2
Optimise Juicer PBS for Gadi
#9
kiratalreja3
closed
1 year ago
0
Parallelising TRASH - unresolved
#8
kiratalreja3
closed
1 year ago
1
Chromosome plot for Bassiana/Tiliqua
#7
kiratalreja3
closed
1 year ago
3
Run Juicer on Pseudo assemby from Hifiasm
#6
kiratalreja3
closed
1 year ago
2
Run Juicer PBS version
#5
kiratalreja3
closed
1 year ago
1
Running Juicer+AutoHiC on Haploid Tiliqua HiFiasm assembly
#4
kiratalreja3
closed
1 year ago
6
Assembly quality metrics
#3
hp2048
closed
1 year ago
0
Assembly metrics
#2
hp2048
closed
1 year ago
1
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