Pinned Repositories
cutshorts
EBI_NGS_Assembly
Practical exercises for the EBI NGS Course -- Assembly
fg6.github.io
My Personal Page
forACT
Pipeline to prepare alignments for visualization with ACT (goo.gl/1T28jX) and for locating possible inter-chromosomal re-arrengments/misjoints
fq2fa
n50
C++ code to evaluate basic stats for a fasta/fastq(.gz) file
random_subreads
Subsample reads from a fastq/fasta file to a desired read depth. Choose random selection or new mean read length
seq_factotum
A package for fast genomic sequences manipulation or interrogation
smis
SMIS: Single Molecular Integrative Scaffolding
YeastStrainsStudy
Scripts to download the PacBio, ONT and MiSeq datasets used in https://www.nature.com/articles/s41598-017-03996-z and run the pipelines as described in the paper or simply download the final assemblies as generated by the authors.
fg6's Repositories
fg6/n50
C++ code to evaluate basic stats for a fasta/fastq(.gz) file
fg6/YeastStrainsStudy
Scripts to download the PacBio, ONT and MiSeq datasets used in https://www.nature.com/articles/s41598-017-03996-z and run the pipelines as described in the paper or simply download the final assemblies as generated by the authors.
fg6/EBI_NGS_Assembly
Practical exercises for the EBI NGS Course -- Assembly
fg6/smis
SMIS: Single Molecular Integrative Scaffolding
fg6/cutshorts
fg6/fg6.github.io
My Personal Page
fg6/forACT
Pipeline to prepare alignments for visualization with ACT (goo.gl/1T28jX) and for locating possible inter-chromosomal re-arrengments/misjoints
fg6/fq2fa
fg6/random_subreads
Subsample reads from a fastq/fasta file to a desired read depth. Choose random selection or new mean read length
fg6/seq_factotum
A package for fast genomic sequences manipulation or interrogation
fg6/hicclus
HI-C data Analysis -- In active development --
fg6/hicfilter
Filtering the scaffold links that comes from the same chromosomes from HiC reads with a Random Forest/XGboost model
fg6/MachineLearning
Machine Learning projects and tests
fg6/MECAT
MECAT: an ultra-fast mapping, error correction and de novo assembly tool for single-molecule sequencing reads
fg6/selfastq
Select reads in a fastq according to predetermined list
fg6/shredPilon
Pipeline to run Pilon on a draft assembly in parallel chunks
fg6/test_ml
progetto di prova
fg6/Tutorials
A list of tutorials and how-tos for data analysis and data science