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seer
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public |
sequence element (kmer) enrichment analysis
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2025-04-22 |
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tiptoft
|
public |
Predict plasmids from uncorrected long read data.
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2025-04-22 |
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pypairs
|
public |
A python scRNA-Seq classifier
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2025-04-22 |
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cgpbigwig
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public |
BigWig manpulation tools using libBigWig and htslib
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2025-04-22 |
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openslide-python
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public |
Python interface to OpenSlide
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2025-04-22 |
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r-fgwas
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public |
GWAS tools for longitudinal genetic traits based on fGWAS statistical model.
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2025-04-22 |
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fpa
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public |
Filter Pairwise Alignment filter long read mapping information to save disk space
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2025-04-22 |
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prince
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public |
PRINCE estimates Variable Number Tandem Repeats (VNTR) copy number from raw next generation sequencing (NGS) data.
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2025-04-22 |
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illumina-utils
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public |
A library and collection of scripts to work with Illumina paired-end data (for CASAVA 1.8+).
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2025-04-22 |
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vcfsamplecompare
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public |
This script sorts and (optionally) filters the rows/variants of a VCF file (containing data for 2 or more samples) based on the differences in the variant data between samples or sample groups. Degree of "difference" is determined by either the best possible degree of separation of sample groups by genotype calls or the difference in average allelic frequency of each sample or sample group (with a gap size threshold). The pair of samples or sample groups used to represent the difference for a variant row is the one leading to the greatest difference in consistent genotype or average allelic frequencies (i.e. observation ratios, e.g. AO/DP) of the same variant state. If sample groups are not specified, the pair of samples leading to the greatest difference is greedily discovered and chosen to represent the variant/row.
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2025-04-22 |
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bioconductor-delayedmatrixstats
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public |
Functions that Apply to Rows and Columns of 'DelayedMatrix' Objects
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2025-04-22 |
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dca
|
public |
Count autoencoder for scRNA-seq denoising
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2025-04-22 |
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gemma
|
public |
Linear mixed models (LMMs) for genome-wide association (GWA)
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2025-04-22 |
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taxator-tk
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public |
Taxator-tk sequence taxonomic annotaion
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2025-04-22 |
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scprep
|
public |
Tools for loading and preprocessing biological matrices in Python.
|
2025-04-22 |
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kopt
|
public |
Keras-hyperopt (kopt); Hyper-parameter tuning for Keras using hyperopt.
|
2025-04-22 |
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fmlrc
|
public |
A long-read error correction tool using the multi-string Burrows Wheeler Transform
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2025-04-22 |
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riborex
|
public |
Riborex is a R package for identification of differential translation from Ribo-seq data.
|
2025-04-22 |
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maxquant
|
public |
MaxQuant is a quantitative proteomics software package designed for analyzing large mass-spectrometric data sets. License restricted.
|
2025-04-22 |
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dnp-fourier
|
public |
Periodogram of dinucleotide frequency pattern
|
2025-04-22 |
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dnp-diprofile
|
public |
Dinucleotide frequency of occurrence in a batch of fasta sequences
|
2025-04-22 |
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dnp-corrprofile
|
public |
Profile of correlations between the patterns of dinucleotide frequency on forward and reverse strands
|
2025-04-22 |
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dnp-binstrings
|
public |
Convert fasta strings into dinucleotide binary indicator string as 00101...
|
2025-04-22 |
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htstream
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public |
HTStream is a quality control and processing pipeline for High Throughput Sequencing data.
The difference between HTStream and other tools is that HTStream uses a tab delimited fastq format that allows for streaming from application to application.
This streaming creates some awesome efficiencies when processing HTS data and makes it fully interoperable with other standard Linux tools.
|
2025-04-22 |
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bazam
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public |
A tool to extract paired reads in FASTQ format from coordinate sorted BAM files
|
2025-04-22 |
