|
sra-tools
|
3.1.0-1 |
3 |
0.00
|
A collection of tools and libraries for using data in the INSDC Sequence Read Archives |
kbipinkumar
|
2024-03-06 00:17 (UTC) |
|
spaln
|
3.0.2-2 |
0 |
0.00
|
Splicing-aware transcript (cDNA/EST or protein sequences) alignment to genomic DNA |
kbipinkumar
|
2023-11-17 07:09 (UTC) |
|
snpeff
|
5.2-2 |
0 |
0.00
|
Genetic variant annotation and effect prediction toolbox. doi:10.4161/fly.19695 |
kbipinkumar
|
2023-10-03 12:02 (UTC) |
|
salmon
|
1.10.3-1 |
0 |
0.00
|
Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using lightweight alignments |
kbipinkumar
|
2024-03-16 00:06 (UTC) |
|
rnalysis
|
3.11-1 |
0 |
0.00
|
Python-based software for analyzing RNA sequencing data. https://doi.org/10.1101/2022.11.25.517851 |
kbipinkumar
|
2024-01-05 18:04 (UTC) |
|
qtltools
|
1.3.1-8 |
0 |
0.00
|
A complete tool set for molecular QTL discovery and analysis. https://doi.org/10.1038/ncomms15452 |
kbipinkumar
|
2023-08-28 06:07 (UTC) |
|
qtl-seq
|
2.2.4-1 |
0 |
0.00
|
Pipeline for bulk segregant analysis. https://doi.org/10.7717/peerj.13170 |
kbipinkumar
|
2023-09-13 00:03 (UTC) |
|
python-xopen
|
2.0.1-1 |
0 |
0.00
|
Python library to pen compressed files transparently |
kbipinkumar
|
2024-03-28 18:02 (UTC) |
|
python-xlmhglite
|
1.1.0-2 |
0 |
0.00
|
A minimal fork of the original python-xlmhg package |
kbipinkumar
|
2023-07-27 06:01 (UTC) |
|
python-xlmhg
|
2.5.4-3 |
0 |
0.00
|
Efficient Python implementation of the semiparametric XL-mHG test for enrichment |
kbipinkumar
|
2023-05-06 00:26 (UTC) |
|
python-upsetplot
|
0.9.0-1 |
0 |
0.00
|
Python implementation of UpSet plots by Lex et al. doi:10.1109/TVCG.2014.2346248 |
kbipinkumar
|
2023-12-31 06:02 (UTC) |
|
python-scikit-learn-extra
|
0.3.0-2 |
0 |
0.00
|
Python module for machine learning that extends scikit-learn |
kbipinkumar
|
2023-05-05 18:01 (UTC) |
|
python-pyvcf3
|
1.0.3-7 |
0 |
0.00
|
Variant Call Format (VCF) parser for Python3 |
kbipinkumar
|
2023-11-01 12:01 (UTC) |
|
python-pybedtools
|
0.10.0-1 |
0 |
0.00
|
python wrapper for BEDTools bioinformatics suite |
kbipinkumar
|
2024-04-10 00:02 (UTC) |
|
python-pairwisedist
|
1.3.1-2 |
0 |
0.00
|
Calculate the pairwise-distance matrix for an array of n samples by p features |
kbipinkumar
|
2023-05-04 00:09 (UTC) |
|
python-ngs
|
3.1.0-1 |
0 |
0.00
|
python module for NCBI NGS Language Bindings |
kbipinkumar
|
2024-03-06 00:06 (UTC) |
|
python-ncls
|
0.0.68-2 |
0 |
0.00
|
A wrapper for the nested containment list data structure. http://dx.doi.org/10.1093/bioinformatics/btz615 |
kbipinkumar
|
2023-05-19 18:01 (UTC) |
|
python-mappy
|
2.28-1 |
0 |
0.00
|
Python interface to minimap2, a fast and accurate C program to align genomic and transcribe nucleotide sequences |
kbipinkumar
|
2024-03-27 18:10 (UTC) |
|
python-isal
|
1.6.1-1 |
0 |
0.00
|
Faster zlib and gzip compatible compression and decompression by providing python bindings for the ISA-L library |
kbipinkumar
|
2024-03-11 18:09 (UTC) |
|
python-grid-strategy
|
0.0.1-5 |
0 |
0.00
|
Organize matplotlib plots using different grid strategies |
kbipinkumar
|
2023-05-04 00:07 (UTC) |
|
python-dnaio
|
1.2.0-1 |
0 |
0.00
|
Python library for very efficient parsing and writing of FASTQ and FASTA files |
kbipinkumar
|
2023-12-11 18:26 (UTC) |
|
pyabpoa
|
1.5.1-1 |
0 |
0.00
|
python bindings for abpoa |
kbipinkumar
|
2024-01-16 06:03 (UTC) |
|
perl-file-share
|
0.27-1 |
0 |
0.00
|
Extend File::ShareDir to Local Libraries |
kbipinkumar
|
2022-12-05 14:33 (UTC) |
|
parafly
|
0.1.0-1 |
0 |
0.00
|
parallel command processing using OpenMP |
kbipinkumar
|
2023-04-23 09:48 (UTC) |
|
outils
|
0.13-1 |
0 |
0.00
|
A port of some non-standard OpenBSD tools to Linux |
kbipinkumar
|
2023-10-20 18:03 (UTC) |
|
oligoarrayaux
|
3.8.1-1 |
0 |
0.00
|
A subset of the UNAFold package for use with OligoArray |
kbipinkumar
|
2023-03-07 04:34 (UTC) |
|
nthash-bcgsc
|
2.3.0-3 |
0 |
0.00
|
Fast hash function for DNA/RNA sequences. https://doi.org/10.1093/bioinformatics/btac564 |
kbipinkumar
|
2023-11-09 00:01 (UTC) |
|
nanostat
|
1.6.0-1 |
0 |
0.00
|
Create statistic summary of an Oxford Nanopore read dataset |
kbipinkumar
|
2023-08-05 09:06 (UTC) |
|
nanoqc
|
0.9.4-1 |
0 |
0.00
|
Create fastQC-like plots for Oxford Nanopore sequencing data |
kbipinkumar
|
2023-08-06 05:29 (UTC) |
|
nanomath
|
1.3.0-2 |
0 |
0.00
|
simple math function for other Oxford Nanopore processing scripts |
kbipinkumar
|
2023-08-05 06:03 (UTC) |
|
nanoget
|
1.19.3-1 |
0 |
0.00
|
Functions to extract useful metrics from Oxford Nanopore sequencing reads and alignments |
kbipinkumar
|
2023-09-20 00:01 (UTC) |
|
mutmap
|
2.3.4-1 |
0 |
0.00
|
Pipeline to identify causative mutations responsible for a phenotype. https://doi.org/10.7717/peerj.13170 |
kbipinkumar
|
2023-09-13 00:02 (UTC) |
|
mmseqs2-sse4
|
15.6f452-2 |
0 |
0.00
|
ultra fast and sensitive search and clustering suite optimised for SSE4 instructions. https://doi.org/10.1038/nbt.3988 |
kbipinkumar
|
2023-11-14 06:10 (UTC) |
|
mmseqs2-avx2
|
15.6f452-2 |
0 |
0.00
|
ultra fast and sensitive search and clustering suite optimised for AVX2 instructions. https://doi.org/10.1038/nbt.3988 |
kbipinkumar
|
2023-11-14 06:10 (UTC) |
|
mhap
|
2.1.3-2 |
0 |
0.00
|
A locality-sensitive hashing to detect long-read overlaps. https://doi.org/10.1038/nbt.3238 |
kbipinkumar
|
2023-06-23 18:02 (UTC) |
|
mashmap
|
3.1.3-1 |
0 |
0.00
|
Fast approximate aligner for long DNA sequences |
kbipinkumar
|
2024-01-04 18:02 (UTC) |
|
lollipops
|
1.7.1-1 |
0 |
0.00
|
Lollipop-style mutation diagrams for annotating genetic variations. https://doi.org/10.1371/journal.pone.0160519 |
kbipinkumar
|
2023-10-05 06:01 (UTC) |
|
libxtend
|
0.2.0-1 |
0 |
0.00
|
A library of miscellaneous generic C functions |
kbipinkumar
|
2023-10-23 18:03 (UTC) |
|
kraken2
|
2.1.3-1 |
0 |
0.00
|
Improved vesion of kraken ultrafast metagenomic sequence classification tool. https://doi.org/10.1186/s13059-019-1891-0 |
kbipinkumar
|
2023-06-07 12:01 (UTC) |
|
hifiasm
|
0.19.8-1 |
0 |
0.00
|
Haplotype-resolved de novo assembler for PacBio Hifi reads. https://doi.org/10.1038/s41592-020-01056-5 |
kbipinkumar
|
2023-11-06 06:02 (UTC) |
|
gri
|
1:2.12.27-2 |
2 |
0.00
|
A script-based language for scientific graphics programming |
kbipinkumar
|
2024-04-16 07:56 (UTC) |
|
generand
|
0.1.2-3 |
0 |
0.00
|
Simple and fast tool for generating random genomic data in common formats for testing and benchmarking purposes |
kbipinkumar
|
2023-06-11 15:16 (UTC) |
|
flair
|
2.0.0-1 |
0 |
0.00
|
Tool for correction, isoform definition, and alternative splicing analysis of nanopore cDNA, native RNA, and PacBio sequencing reads |
kbipinkumar
|
2023-06-14 00:01 (UTC) |
|
fastq-trim
|
0.1.3-1 |
0 |
0.00
|
Lightening fast read trimmer |
kbipinkumar
|
2023-10-24 18:03 (UTC) |
|
fastani
|
1.34-1 |
0 |
0.00
|
Fast alignment-free computation of whole-genome Average Nucleotide Identity (ANI). |
kbipinkumar
|
2023-07-31 00:01 (UTC) |
|
fastahack
|
1.0.0-3 |
0 |
0.00
|
utilities for indexing and sequence extraction from FASTA files |
kbipinkumar
|
2023-06-02 00:01 (UTC) |
|
fasda
|
0.1.5-1 |
0 |
0.00
|
Fast And Simple Differential Analysis of transcriptomic data |
kbipinkumar
|
2023-10-24 18:02 (UTC) |
|
estscan-doc
|
3.0.3-2 |
0 |
0.00
|
Documentation for estscan |
kbipinkumar
|
2023-04-15 18:01 (UTC) |
|
estscan
|
3.0.3-2 |
0 |
0.00
|
ORF-independent detector of coding DNA sequences |
kbipinkumar
|
2023-04-15 18:01 (UTC) |
|
cutadapt
|
4.8-1 |
0 |
0.00
|
Remove adapter sequences from high-throughput sequencing reads. doi:10.14806/ej.17.1.200 |
kbipinkumar
|
2024-04-12 18:21 (UTC) |