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ont-spectre
|
public |
Oxford Nanopore Technologies Plc. fork of Spectre CNV caller
|
2024-11-08 |
|
medaka
|
public |
Neural network sequence error correction.
|
2024-10-11 |
|
modkit
|
public |
A versatile pairwise aligner for genomic and spliced nucleotide sequences.
|
2024-09-20 |
|
aplanat
|
public |
Bokeh plotting API, with bio-focussed extras.
|
2024-09-15 |
|
ezcharts
|
public |
eCharts plotting API
|
2024-09-13 |
|
epi2melabs
|
public |
Helper library for miscellaneous EPI2ME Labs functionality
|
2024-08-20 |
|
minimap2
|
public |
A versatile pairwise aligner for genomic and spliced nucleotide sequences.
|
2024-08-19 |
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bcftools
|
public |
BCFtools is a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed. Most commands accept VCF, bgzipped VCF and BCF with filetype detected automatically even when streaming from a pipe. Indexed VCF and BCF will work in all situations. Un-indexed VCF and BCF and streams will work in most, but not all situations.
|
2024-08-19 |
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mappy
|
public |
Minimap2 Python binding
|
2024-08-19 |
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pysam
|
public |
Pysam is a Python module for reading and manipulating SAM/BAM/VCF/BCF files. It's a lightweight wrapper of the htslib C-API, the same one that powers samtools, bcftools, and tabix.
|
2024-08-16 |
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python-edlib
|
public |
Lightweight, super fast C/C++ (& Python) library for sequence alignment using edit (Levenshtein) distance.
|
2024-08-16 |
|
parasail-python
|
public |
Python bindings for the parasail C library containing implementations of pairwise sequence alignment algorithms.
|
2024-08-16 |
|
pore-c-py
|
public |
Python scripts for working with Pore-C data
|
2024-08-14 |
|
fastcat
|
public |
Concatenate fast/a/q/gz and calculate basic statistics
|
2024-08-08 |
|
pychopper
|
public |
A tool to identify, orient and rescue full length cDNA reads from nanopore data.
|
2024-07-25 |
|
np-artic
|
public |
No Summary
|
2024-07-16 |
|
longphase
|
public |
LongPhase is an ultra-fast program for simultaneously co-phasing SNPs, small indels, large SVs, and (5mC) modifications for Nanopore and PacBio platforms.
|
2024-07-10 |
|
samtools
|
public |
Tools for dealing with SAM, BAM and CRAM files
|
2024-03-05 |
|
htslib
|
public |
C library for high-throughput sequencing data formats.
|
2024-03-04 |
|
kraken2-server
|
public |
Server implementation of kraken2
|
2024-01-23 |
|
perl-json-xs
|
public |
JSON serialising/deserialising, done correctly and fast
|
2023-10-24 |
|
perl-io-compress
|
public |
IO Interface to compressed data files/buffers
|
2023-10-24 |
|
perl-compress-raw-bzip2
|
public |
Low-Level Interface to bzip2 compression library
|
2023-10-24 |
|
perl-compress-raw-zlib
|
public |
Basic utilities for writing tests.
|
2023-10-24 |
|
blast
|
public |
BLAST+ is a new suite of BLAST tools that utilizes the NCBI C++ Toolkit.
|
2023-10-23 |
|
whatshap
|
public |
phase genomic variants using DNA sequencing reads (haplotype assembly)
|
2023-10-23 |
|
time
|
public |
time command from GNU
|
2023-10-20 |
|
perl-params-validate
|
public |
Validate method/function parameters
|
2023-10-06 |
|
perl-encode
|
public |
character encodings in Perl
|
2023-10-06 |
|
xopen
|
public |
Open compressed files transparently in Python
|
2023-10-06 |
|
perl-data-dumper
|
public |
seeds germane, yet not germinated
|
2023-10-06 |
|
perl-list-moreutils-xs
|
public |
Provide the stuff missing in List::Util in XS
|
2023-10-06 |
|
perl-pathtools
|
public |
Tools for working with directory and file names
|
2023-10-06 |
|
perl-extutils-constant
|
public |
generate XS code to import C header constants
|
2023-10-06 |
|
perl-version
|
public |
Structured version objects
|
2023-10-06 |
|
perl-storable
|
public |
persistence for Perl data structures
|
2023-10-06 |
|
perl-scalar-list-utils
|
public |
Common Scalar and List utility subroutines
|
2023-10-06 |
|
perl-gd
|
public |
Perl interface to the gd2 graphics library
|
2023-10-06 |
|
perl-time-hires
|
public |
High resolution alarm, sleep, gettimeofday, interval timers
|
2023-10-06 |
|
perl-clone
|
public |
recursively copy Perl datatypes
|
2023-10-06 |
|
perl-b-cow
|
public |
B::COW additional B helpers to check COW status
|
2023-10-06 |
|
pyrodigal
|
public |
Python bindings to Prodigal, an ORF finder for microbial sequences.
|
2023-10-06 |
|
ncbi-amrfinderplus
|
public |
AMRFinderPlus finds antimicrobial resistance and other genes in protein or nucleotide sequences.
|
2023-10-06 |
|
piler-cr
|
public |
Identification and analysis of CRISPR repeats.
|
2023-10-06 |
|
aragorn
|
public |
ARAGORN, tRNA (and tmRNA) detection
|
2023-10-06 |
|
clustalw
|
public |
ClustalW2 is a general purpose multiple sequence alignment program for DNA or proteins.
|
2023-10-05 |
|
paml
|
public |
A package of programs for phylogenetic analyses of DNA or protein sequences using maximum likelihood.
|
2023-10-05 |
|
pyspoa
|
public |
Python binding to spoa library.
|
2023-10-04 |
|
last
|
public |
LAST finds & aligns related regions of sequences.
|
2023-09-25 |
|
parallel
|
public |
GNU parallel is a shell tool for executing jobs in parallel using one or more computers.
|
2023-09-22 |
