gitlab.pasteur.fr / GIPhy 29 Repositories
| Genome Informatics & Phylogenetics | [ Centre de Ressources Biologiques IP ] [ Institut Pasteur, 75 015 Paris, France ] (((( ( https://tinyurl.com/0-GIPhy-0 ) )))) <<<< < https://giphy.pasteur.fr > >>>>
GIPhy/fq2dna
Genome de novo assembly from raw paired-end FASTQ files
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/gbk2ENA
Converting Genbank files into EMBL-like files suitable for submission to ENA
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/SWANI
Smith-Waterman-based Average Nucleotide Identity
Last synced at: 7 months ago - Stars: 0 - Forks: 0
GIPhy/wgetGenBankWGS
Downloading genome assembly files from GenBank or RefSeq
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/eCDS
Extracting CDS from contig sequences
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/REQ
Estimating a confidence value at each branch of a phylogenetic tree from a matrix of pairwise evolutionary distances
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/LINtree
building prefix tree from LIN codes
Last synced at: 7 months ago - Stars: 0 - Forks: 0
GIPhy/BMGE
Block Mapping and Gathering with Entropy
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/OGRI
Estimating pairwise OGRIs between genomes (ANI, AAI, POCP, ...)
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/fqCleanER
Preprocessing FASTQ files
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/wgetENAHTS
Downloading FASTQ files from ENA
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 1 - Forks: 0
GIPhy/SAM2MSA
Building a multiple sequence alignment well-suited for phylogenetic analysis from read mapping data
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/HCAP
Cropping reads to reach homogeneous composition among positions
Last synced at: 7 months ago - Stars: 0 - Forks: 0
GIPhy/JolyTree
Fast distance-based phylogenetic inference from unaligned genome sequences
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/YACO
Yet Another Contig Ordering
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/SimiPlot
creating figures showing overall similarity between genomes
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/MSAshrink
Multiple Sequence Alignment shrinking
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/Gklust
Fast greedy clustering of genomes based on minhash similarity
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/GenoMed
Estimating Genome Medoid
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/GenoLayout
Creating figures showing linear maps between genomes
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/findSynapomorphies
Find characters shared by a group of aligned sequences
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/fastq_info
Estimating standard descriptive statistics from FASTQ files
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/eFASTA
Extracting a nucleotide segment from a FASTA-formatted file
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/DNA2ORF
Translating the maximum number of codons using the minimum number of ORFs
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/Concatenate
Building a supermatrix of characters from a set of multiple sequence alignments
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/C2A.A2C
Translating and back-translating codon and amino-acid sequence files
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/AlienTrimmer
Fast trimming of sequencing reads
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/AlienRemover
Fast removal of contaminating reads from FASTQ file(s)
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/RepeatPlot
creating figures that represent the positions of long repeats in a chromosome
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/AlienDiscover
Inferring alien oligonucleotides (adapters, primers, ...) from FASTQ file
Last synced at: 7 months ago - Stars: 0 - Forks: 0
GIPhy/MSTclust
Minimum Spanning Tree-based clustering
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/contig_info
Estimating standard descriptive statistics from contig sequences
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
GIPhy/FASTA2AGP
Creating an AGP file from a FASTA-formatted scaffold sequence file
Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
