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msweep
|
public |
mSWEEP - bacterial community composition estimation from pseudoalignments
|
2024-12-13 |
|
r-chbutils
|
public |
Useful utility functions used at the Harvard Chan School Bioinformatics core
|
2024-12-13 |
|
deploid
|
public |
A software that deconvolutes mixed genomes with unknown proportions.
|
2024-12-13 |
|
ucsc-bigwigcorrelate
|
public |
Correlate bigWig files, optionally only on target regions.
|
2024-12-13 |
|
ucsc-ticktodate
|
public |
Convert seconds since 1970 to time and date
|
2024-12-13 |
|
king
|
public |
`Kinship-based INference for Gwas (KING) is a toolset that makes use of high-throughput SNP data typically seen in a genome-wide association study <http://people.virginia.edu/~wc9c/KING/>`_
|
2024-12-13 |
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kaiju
|
public |
Fast and sensitive taxonomic classification for metagenomics
|
2024-12-13 |
|
gfmix
|
public |
Accelerated Estimation of Frequency Classes in Site-heterogeneous Profile Mixture Models
|
2024-12-13 |
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r-rubic
|
public |
No Summary
|
2024-12-13 |
|
smhasher
|
public |
No Summary
|
2024-12-13 |
|
ucsc-chromgraphtobin
|
public |
Make binary version of chromGraph.
|
2024-12-13 |
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ucsc-chainprenet
|
public |
Remove chains that don't have a chance of being netted
|
2024-12-13 |
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zerone
|
public |
Zerone discretizes several ChIP-seq replicates simultaneously and resolves conflicts between them.
|
2024-12-13 |
|
rpsbproc
|
public |
RpsbProc, the post-RPSBLAST Processing Utility.
|
2024-12-13 |
|
perl-math-cdf
|
public |
Generate probabilities and quantiles from several statistical probability functions
|
2024-12-13 |
|
wise2
|
public |
The Wise2.4 package is the "revival" release of Wise2
|
2024-12-13 |
|
kart
|
public |
Kart: a divide-and-conquer algorithm for NGS read alignment
|
2024-12-13 |
|
sage-proteomics
|
public |
Proteomics searching so fast it feels like magic.
|
2024-12-13 |
|
narfmap
|
public |
NARFMAP is a fork of the Dragen mapper/aligner Open Source Software.
|
2024-12-13 |
|
takeabreak
|
public |
tool that can detect inversion breakpoints directly from raw NGS reads, without the need of any reference genome and without de novo assembling the genomes
|
2024-12-13 |
|
gretl
|
public |
gretl is a tool to compute a range of statistics on variation graphs in gfa format.
|
2024-12-13 |
|
dechat
|
public |
Repeat and haplotype aware error correction in nanopore sequencing reads with Dechat
|
2024-12-13 |
|
ucsc-chainfilter
|
public |
Filter chain files. Output goes to standard out.
|
2024-12-13 |
|
groot
|
public |
A tool for resistome profiling of metagenomic samples.
|
2024-12-13 |
|
prodigal
|
public |
Prodigal (Prokaryotic Dynamic Programming Genefinding Algorithm) is a microbial (bacterial and archaeal) gene finding program
|
2024-12-13 |
|
hifiasm_meta
|
public |
Metagenome assembler for Hifi reads, based on hifiasm.
|
2024-12-13 |
|
ucsc-wigtobigwig
|
public |
Convert ascii format wig file (in fixedStep, variableStep).
|
2024-12-13 |
|
pytabix
|
public |
Fast random access to sorted files compressed with bgzip and indexed by tabix.
|
2024-12-13 |
|
ucsc-bigwigsummary
|
public |
Extract summary information from a bigWig file.
|
2024-12-13 |
|
haplomap
|
public |
Haplotype-based computational genetic mapping.
|
2024-12-13 |
|
fxtract
|
public |
Extract sequences from a fastx file given a subsequence or identifier.
|
2024-12-13 |
|
ucsc-psldropoverlap
|
public |
deletes all overlapping self alignments.
|
2024-12-13 |
|
read-it-and-keep
|
public |
Read contamination removal
|
2024-12-13 |
|
epik
|
public |
EPIK is a tool for fast alignement-free phylogenetic placements.
|
2024-12-13 |
|
ucsc-oligomatch
|
public |
find perfect matches in sequence.
|
2024-12-13 |
|
nonpareil
|
public |
Estimate average coverage and create curves for metagenomic datasets
|
2024-12-13 |
|
seqwish
|
public |
Alignment to variation graph inducer
|
2024-12-13 |
|
selscan
|
public |
a program to calculate EHH-based scans for positive selection in genomes
|
2024-12-13 |
|
dist_est
|
public |
Estimation of Rates-Across-Sites Distributions in Phylogenetic Subsititution Models
|
2024-12-13 |
|
ucsc-findmotif
|
public |
find specified motif in sequence
|
2024-12-13 |
|
ucsc-chaintoaxt
|
public |
Convert from chain to axt file
|
2024-12-13 |
|
umi-transfer
|
public |
A tool for transferring Unique Molecular Identifiers (UMIs) from a separate FastQ file.
|
2024-12-13 |
|
swarm
|
public |
A robust and fast clustering method for amplicon-based studies.
|
2024-12-13 |
|
seqcomplexity
|
public |
Calculates Per-Read and Total Sequence Complexity from FastQ file.
|
2024-12-13 |
|
geco2
|
public |
A fast tool to compress DNA sequences
|
2024-12-13 |
|
dsk
|
public |
DSK is a k-mer counter for reads or genomes.
|
2024-12-13 |
|
ptrimmer
|
public |
Used to trim off the primer sequence from mutiplex amplicon sequencing
|
2024-12-13 |
|
ucsc-psltochain
|
public |
Convert psl records to chain records
|
2024-12-13 |
|
cd-hit
|
public |
Clusters and compares protein or nucleotide sequences
|
2024-12-13 |
|
guide-counter
|
public |
Fast and accurate guide counting for CRISPR screens
|
2024-12-13 |
