Issues · genotoul-bioinfo / metagWGS · GitLab

Count number of base in fastq after cleaning

#56 · created Feb 13, 2020 by Celine Noirot V1.1- Contig affilation and binning Enhancement
- CLOSED
- 1
updated Jan 13, 2021
Replace Assemblathon by QUast

#55 · created Feb 13, 2020 by Celine Noirot V1.1- Contig affilation and binning Enhancement
- CLOSED
- 3
updated Aug 14, 2020
README: Add informations for metaSPAdes or megahit choice

#27 · created Jul 10, 2019 by Joanna Fourquet V1.1- Contig affilation and binning New feature
- CLOSED
- 2
updated Dec 18, 2019
Add Singularity container

#25 · created Jul 01, 2019 by Joanna Fourquet V1.1- Contig affilation and binning Enhancement
- CLOSED
- 1
updated Dec 18, 2019
README: add documentation about genologin module load issue

#29 · created Aug 05, 2019 by Joanna Fourquet V1.1- Contig affilation and binning Bug Enhancement
- CLOSED
- 2
updated Dec 11, 2019
Change y axis name kaiju graph ("normalized")

#36 · created Sep 11, 2019 by Joanna Fourquet V1.1- Contig affilation and binning Enhancement
- CLOSED
- 1
updated Dec 10, 2019
Add title kaiju graphs

#35 · created Sep 11, 2019 by Joanna Fourquet V1.1- Contig affilation and binning Enhancement
- CLOSED
- 1
updated Dec 10, 2019
Barplot Kaiju: code it into a Python script

#34 · created Sep 09, 2019 by Joanna Fourquet V1.1- Contig affilation and binning Enhancement
- CLOSED
- 0
updated Dec 10, 2019
Change ouput file names

#40 · created Sep 11, 2019 by Joanna Fourquet V1.1- Contig affilation and binning Enhancement
- CLOSED
- 4
updated Dec 09, 2019
Process cd-hit: 0.95 must be a parameter and delete 0.95 in file names.

#47 · created Sep 11, 2019 by Joanna Fourquet V1.1- Contig affilation and binning Todo
- CLOSED
- 1
updated Dec 09, 2019
add description column in diamond output

#49 · created Dec 04, 2019 by Joanna Fourquet V1.1- Contig affilation and binning Todo
- CLOSED
- 1
updated Dec 09, 2019
Process optimization (no creation of intermediate files)

#17 · created Jun 05, 2019 by Joanna Fourquet V1.1- Contig affilation and binning Enhancement
- CLOSED
- 1
updated Dec 04, 2019
DIAMOND: taxonomy consensus contigs

#32 · created Aug 14, 2019 by Joanna Fourquet V1.1- Contig affilation and binning New feature
- CLOSED
- 1
updated Dec 04, 2019
DIAMOND parser: protein id file

#31 · created Aug 14, 2019 by Joanna Fourquet V1.1- Contig affilation and binning New feature
- CLOSED
- 1
updated Dec 04, 2019
Update readme file and documentation

#21 · created Jun 28, 2019 by Joanna Fourquet V1.1- Contig affilation and binning Enhancement
- CLOSED
- 1
updated Dec 04, 2019
Assembly and annotation with PROKKA

#6 · created Feb 15, 2019 by Joanna Fourquet V1.1- Contig affilation and binning Discussion New feature
- CLOSED
- 2
updated Dec 04, 2019
Add taxonomic databases in option

#3 · created Jan 30, 2019 by Joanna Fourquet V1.1- Contig affilation and binning Discussion
- CLOSED
- 1
updated Dec 04, 2019
Add fasta_length.pl to replace DESMAN Lengths.py script

#42 · created Sep 11, 2019 by Joanna Fourquet V1.1- Contig affilation and binning Enhancement
- CLOSED
- 0
updated Sep 19, 2019
Add taxonomic classification of reads with Kraken2 ?

#22 · created Jun 28, 2019 by Joanna Fourquet V1.1- Contig affilation and binning Discussion
- CLOSED
- 1
updated Sep 09, 2019
Add comparison kaiju vs Kraken2 ?

#23 · created Jun 28, 2019 by Joanna Fourquet V1.1- Contig affilation and binning Discussion
- CLOSED
- 1
updated Sep 09, 2019