Changes between Version 109 and Version 110 of Software

Timestamp:

May 9, 2023, 2:22:13 PM (19 months ago)

Author:

jones

Comment:

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Software

@@ -18 +18 @@
   * [[Software/Salmon]] - RNASeq alignment and quantification tool
   * [[Software/star]] - splicing-aware RNA alignment
+  * [[Software/bwa-mem2]] - Next generation of bwa tool for mapping of short reads to genomes
+
 
 === Classification
   * [[Software/GraftM]] - Pipeline to identify and classify marker gene reads from metagenomic datasets
+  * [[Software/gtdbtk]] - Assigning taxonomic classifications to bacterial and archaeal genomes based on Genomes Database Taxonomy
+
 
 === Encoding
@@ -55 +59 @@
   * [[Software/Jellyfish]] - A fast k-mer counter
   * [[Software/subread]] - A package including softwares to perform alignment, SNP calling, indel detection and read quantification
+  * [[Software/CoverM]] - DNA read coverage and relative abundance calculator focused on metagenomes
+  * [[Software/Dashing]] - Calculation of genomic distances using HyperLogLog sketches
+  * [[Software/fastANI]] - Calculation of average nucleotide distances between genomes
+  * [[Software/mash]] - Fast genome and metagenome distance estimation using MinHash
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 === Sequence and Genome Annotation tools
@@ -95 +109 @@
 === Sequencing
   * [[Software/FastQC]]
-  * Software/SamTools
+  * [[Software/SamTools]]
   * [[Software/BBTools]]
+  * [[Software/sambamba]] - Library for fast handling of of SAM and BAM files
+  * [[Software/bamtools]] - For handling BAM files
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 === Compilers, Libraries, and Other Misc software
@@ -104 +123 @@
   * [[Software/libxml2]]
   * [[Software/parallel]]
+  * [[Software/ldc2]] - LLVM D language compiler