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ndreey
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CONURA_WGS
Metagenomic analysis on whole genome sequencing data from Tephritis conura (IN PROGRESS)
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All samples, all power approach
#46
ndreey
opened
2 weeks ago
7
Broad approach: All CH and all CO metagenome
#45
ndreey
opened
2 weeks ago
1
CHST-summary
#44
ndreey
opened
2 weeks ago
1
Binning
#43
ndreey
closed
2 weeks ago
0
Anvio: the multi-omics tool
#42
ndreey
opened
1 month ago
2
finished nf-core run + read stats
#41
ndreey
closed
1 month ago
0
Restored the results/ folder
#40
ndreey
closed
1 month ago
0
Finalization of decon read assembly
#39
ndreey
closed
1 month ago
0
nf-core/mag
#38
ndreey
opened
1 month ago
4
nf-core: Basics
#37
ndreey
opened
1 month ago
1
Metagenome Assembly
#36
ndreey
opened
1 month ago
0
Starting the host decontamination
#35
ndreey
closed
2 months ago
0
Burrows-Wheeler-Aligner (BWA): Host Decontamination (RESOLVED)
#34
ndreey
opened
2 months ago
1
Re-ran trimming on per-lane-basis
#33
ndreey
closed
2 months ago
0
RE-RUNNING QUALITY CONTROL: No merger, handle lane per lane.
#32
ndreey
opened
2 months ago
0
Paired-end reads are not lined up causing issues downstream
#31
ndreey
opened
2 months ago
1
steps up to decontamination
#30
ndreey
closed
2 months ago
0
Burrows-Wheeler-Aligner (BWA): Host Decontamination (MERGER ISSUE RESOLVED)
#29
ndreey
opened
2 months ago
1
Kraken2: Host-decontamination
#28
ndreey
opened
2 months ago
0
KneadData: Host-decontamination (FAILED)
#27
ndreey
opened
2 months ago
0
short read metagenome assembly with spades and megahit
#26
ndreey
closed
2 months ago
0
Assembling the metagenome using SPAdes and MEGAHIT
#25
ndreey
opened
2 months ago
3
Trim finalized
#24
ndreey
closed
2 months ago
0
Installing Anvio-8 on Rackham
#23
ndreey
opened
2 months ago
1
fastp-trim.sh
#22
ndreey
opened
2 months ago
1
Test of different trimming parameters finalized
#21
ndreey
closed
2 months ago
0
Test data from first trim
#20
ndreey
closed
2 months ago
0
Quality Control: Trimming with fastp v0.23.4
#19
ndreey
opened
2 months ago
3
final raw QC results
#18
ndreey
closed
2 months ago
0
re-structuring the file archetecture and organising the log files + j…
#17
ndreey
closed
2 months ago
0
updated scripts to include email
#16
ndreey
closed
2 months ago
0
removing slurm log that was accidently pushed
#15
ndreey
closed
2 months ago
0
Qc
#14
ndreey
closed
2 months ago
0
Quality Control: Duplication bug, BAD MERGE
#13
ndreey
opened
2 months ago
2
adding multiqc to repo
#12
ndreey
closed
2 months ago
0
QC of RAW P12002
#11
ndreey
closed
2 months ago
0
Qc
#10
ndreey
closed
2 months ago
0
Quality Control: Generating FastQC and MultiQC reports
#9
ndreey
opened
2 months ago
3
init trimming and qc
#8
ndreey
closed
2 months ago
0
last changes before branch switch, exploring installation of anvio
#7
ndreey
closed
2 months ago
0
milestone: rawdata is here after succesfull run of merge_samples_acro…
#6
ndreey
closed
2 months ago
0
Merger of raw reads to per sample data!
#5
ndreey
opened
2 months ago
0
Merge reads
#4
ndreey
closed
2 months ago
0
merge_samples_across_lanes.sh
#3
ndreey
opened
2 months ago
2
last push from local pc
#2
ndreey
closed
2 months ago
0
First date with the data, getting to know each other.
#1
ndreey
opened
2 months ago
0