Update from update/analysis-2023-08-23

_data/language_counts.json

@@ -1,16 +1,16 @@
 {
-    "unknown": 165,
-    "Python": 2002,
+    "unknown": 166,
+    "Python": 2011,
     "Jupyter Notebook": 402,
     "Modelica": 1,
     "Shell": 29,
     "HTML": 82,
     "Perl": 45,
-    "R": 630,
-    "C++": 533,
+    "R": 631,
+    "C++": 537,
     "Java": 101,
-    "C": 311,
-    "Rust": 28,
+    "C": 312,
+    "Rust": 29,
     "JavaScript": 79,
     "AMPL": 1,
     "MATLAB": 38,
@@ -30,13 +30,13 @@
     "Pascal": 1,
     "TSQL": 2,
     "Kotlin": 2,
-    "Go": 25,
+    "Go": 26,
     "PostScript": 3,
     "Nextflow": 8,
     "CSS": 5,
     "NCL": 1,
     "Rich Text Format": 1,
-    "Cuda": 9,
+    "Cuda": 10,
     "TeX": 21,
     "Ruby": 11,
     "Mathematica": 18,

_data/repos.json

@@ -18187,7 +18187,126 @@
         "github/smithlabcode/dnmtools": [],
         "github/fairtracks/omnipy_examples": [],
         "github/prmunday/Immunolyser": [],
-        "gitlab/cirad-apps/phylostems": []
+        "gitlab/cirad-apps/phylostems": [],
+        "gitlab/chaver/choco-mining": [
+            "Association Rules Mining",
+            "Choco solver",
+            "Constraint Programming",
+            "Pareto",
+            "Skypattern",
+            "data mining",
+            "pattern mining"
+        ],
+        "github/thomas0809/MolScribe": [
+            "chemistry",
+            "deep-learning",
+            "molecule"
+        ],
+        "github/sciris/sciris": [
+            "python",
+            "computational-science",
+            "containers",
+            "data-science",
+            "matplotlib",
+            "numpy",
+            "parallelization",
+            "plotting",
+            "scientific-computing",
+            "utilities"
+        ],
+        "github/julianreul/mode_behave": [],
+        "github/smithlabcode/abismal": [
+            "bioinformatics",
+            "bisulfite-sequencing",
+            "mapping-algorithms"
+        ],
+        "github/cdanielmachado/carveme": [
+            "metabolism",
+            "modeling",
+            "python",
+            "reconstruction",
+            "genome-scale"
+        ],
+        "github/Autostronomy/AstroPhot": [
+            "astronomy",
+            "python",
+            "pytorch",
+            "scientific-computing",
+            "science-research"
+        ],
+        "github/arumugamlab/msamtools": [],
+        "github/q1cui/discourseGT": [],
+        "github/theLongLab/CATE": [
+            "1000genomes",
+            "cuda",
+            "cuda-programming",
+            "evolutionary-algorithms",
+            "evolutionary-biology",
+            "evolutionary-computation",
+            "genetic-algorithm",
+            "genetics",
+            "neutrality-test",
+            "vcf",
+            "vcf-data",
+            "vcf-files",
+            "cuda-toolkit",
+            "ehh",
+            "extended-haplotype-homozygosity",
+            "mk-test",
+            "neutrality",
+            "tajima"
+        ],
+        "github/arshajii/ema": [
+            "bioinformatics",
+            "sequence-alignment"
+        ],
+        "github/milkschen/leviosam2": [],
+        "github/kuanrongchan/COVID19-severity": [],
+        "github/BobAubouin/Python_Anesthesia_Simulator": [
+            "anesthesia",
+            "simulation",
+            "drug-dosage"
+        ],
+        "github/johentsch/ms3": [
+            "corpus",
+            "corpus-data",
+            "corpus-generator",
+            "corpus-processing",
+            "corpus-tools",
+            "musescore",
+            "musescore2",
+            "musescore3",
+            "musescore4",
+            "music-score",
+            "music-scores",
+            "parser",
+            "sheet-music",
+            "sheet-music-parser",
+            "tsv",
+            "tsv-files",
+            "tsv-format",
+            "xml-parser",
+            "xml-parser-library",
+            "xml-parsing"
+        ],
+        "github/marco-oliva/pfp": [],
+        "github/shenwei356/kmcp": [
+            "kmer",
+            "sketch",
+            "searching",
+            "metagenomics",
+            "taxonomic-classification",
+            "taxonomic-profiling",
+            "scaled-minhash",
+            "syncmers",
+            "cobs",
+            "sketching",
+            "bigsi",
+            "fracminhash",
+            "virome"
+        ],
+        "github/frank1010111/bluebonnet": [],
+        "github/natir/vcf2parquet": []
     },
     "language": {
         "gitlab/chiemotono/mdcontactcom": "unknown",
@@ -23193,7 +23312,26 @@
         "github/smithlabcode/dnmtools": "C++",
         "github/fairtracks/omnipy_examples": "Python",
         "github/prmunday/Immunolyser": "Python",
-        "gitlab/cirad-apps/phylostems": "unknown"
+        "gitlab/cirad-apps/phylostems": "unknown",
+        "gitlab/chaver/choco-mining": "unknown",
+        "github/thomas0809/MolScribe": "Python",
+        "github/sciris/sciris": "Python",
+        "github/julianreul/mode_behave": "Python",
+        "github/smithlabcode/abismal": "C++",
+        "github/cdanielmachado/carveme": "Python",
+        "github/Autostronomy/AstroPhot": "Python",
+        "github/arumugamlab/msamtools": "C",
+        "github/q1cui/discourseGT": "R",
+        "github/theLongLab/CATE": "Cuda",
+        "github/arshajii/ema": "C++",
+        "github/milkschen/leviosam2": "C++",
+        "github/kuanrongchan/COVID19-severity": "Python",
+        "github/BobAubouin/Python_Anesthesia_Simulator": "Python",
+        "github/johentsch/ms3": "Python",
+        "github/marco-oliva/pfp": "C++",
+        "github/shenwei356/kmcp": "Go",
+        "github/frank1010111/bluebonnet": "Python",
+        "github/natir/vcf2parquet": "Rust"
     },
     "url": {
         "gitlab/chiemotono/mdcontactcom": "https://gitlab.com/chiemotono/mdcontactcom",
@@ -28199,7 +28337,26 @@
         "github/smithlabcode/dnmtools": "https://github.com/smithlabcode/dnmtools",
         "github/fairtracks/omnipy_examples": "https://github.com/fairtracks/omnipy_examples",
         "github/prmunday/Immunolyser": "https://github.com/prmunday/Immunolyser",
-        "gitlab/cirad-apps/phylostems": "https://gitlab.com/cirad-apps/phylostems"
+        "gitlab/cirad-apps/phylostems": "https://gitlab.com/cirad-apps/phylostems",
+        "gitlab/chaver/choco-mining": "https://gitlab.com/chaver/choco-mining",
+        "github/thomas0809/MolScribe": "https://github.com/thomas0809/MolScribe",
+        "github/sciris/sciris": "https://github.com/sciris/sciris",
+        "github/julianreul/mode_behave": "https://github.com/julianreul/mode_behave",
+        "github/smithlabcode/abismal": "https://github.com/smithlabcode/abismal",
+        "github/cdanielmachado/carveme": "https://github.com/cdanielmachado/carveme",
+        "github/Autostronomy/AstroPhot": "https://github.com/Autostronomy/AstroPhot",
+        "github/arumugamlab/msamtools": "https://github.com/arumugamlab/msamtools",
+        "github/q1cui/discourseGT": "https://github.com/q1cui/discourseGT",
+        "github/theLongLab/CATE": "https://github.com/theLongLab/CATE",
+        "github/arshajii/ema": "https://github.com/arshajii/ema",
+        "github/milkschen/leviosam2": "https://github.com/milkschen/leviosam2",
+        "github/kuanrongchan/COVID19-severity": "https://github.com/kuanrongchan/COVID19-severity",
+        "github/BobAubouin/Python_Anesthesia_Simulator": "https://github.com/BobAubouin/Python_Anesthesia_Simulator",
+        "github/johentsch/ms3": "https://github.com/johentsch/ms3",
+        "github/marco-oliva/pfp": "https://github.com/marco-oliva/pfp",
+        "github/shenwei356/kmcp": "https://github.com/shenwei356/kmcp",
+        "github/frank1010111/bluebonnet": "https://github.com/frank1010111/bluebonnet",
+        "github/natir/vcf2parquet": "https://github.com/natir/vcf2parquet"
     },
     "description": {
         "gitlab/chiemotono/mdcontactcom": "",
@@ -33205,6 +33362,25 @@
         "github/smithlabcode/dnmtools": "Tools for analyzing DNA methylation data",
         "github/fairtracks/omnipy_examples": null,
         "github/prmunday/Immunolyser": null,
-        "gitlab/cirad-apps/phylostems": "**phylostems** is a graphical tool developped by CIRAD (UMR PVBMT) to explore temporal signal at various evolutionary scales in heterochronous nucleic acid sequences datasets."
+        "gitlab/cirad-apps/phylostems": "**phylostems** is a graphical tool developped by CIRAD (UMR PVBMT) to explore temporal signal at various evolutionary scales in heterochronous nucleic acid sequences datasets.",
+        "gitlab/chaver/choco-mining": "Data mining with Choco solver",
+        "github/thomas0809/MolScribe": "Robust Molecular Structure Recognition with Image-to-Graph Generation",
+        "github/sciris/sciris": "Fast, flexible tools to simplify scientific Python",
+        "github/julianreul/mode_behave": "A Python package for estimating mixed logit models with nonparametric distributions",
+        "github/smithlabcode/abismal": "Abismal is a mapper of FASTQ bisulfite-converted short reads (between 50 and 1000 bases) to a FASTA reference genome.",
+        "github/cdanielmachado/carveme": "CarveMe: genome-scale metabolic model reconstruction",
+        "github/Autostronomy/AstroPhot": "A fast, flexible, automated, and differentiable astronomical image modelling tool for precise parallel multi-wavelength photometry",
+        "github/arumugamlab/msamtools": "Metagenomics-related extended functionalities to samtools",
+        "github/q1cui/discourseGT": "discourseGT \u2014 Analyze Group Patterns using Graph Theory in Educational Settings",
+        "github/theLongLab/CATE": "A fast and scalable CUDA implementation to conduct highly parallelized evolutionary tests on large scale genomic data.",
+        "github/arshajii/ema": "Fast & accurate alignment of barcoded short-reads",
+        "github/milkschen/leviosam2": "Fast and accurate coordinate conversion between assemblies",
+        "github/kuanrongchan/COVID19-severity": null,
+        "github/BobAubouin/Python_Anesthesia_Simulator": "Simulate the effect of drugs during total intrevenous anesthesia",
+        "github/johentsch/ms3": "A parser for annotated MuseScore 3 files.",
+        "github/marco-oliva/pfp": "Prefix Free Parsing",
+        "github/shenwei356/kmcp": "Accurate metagenomic profiling && Fast large-scale sequence/genome searching",
+        "github/frank1010111/bluebonnet": "Scaling solutions for production analysis from unconventional oil and gas wells",
+        "github/natir/vcf2parquet": "Convert vcf in parquet "
     }
 }

_data/repos_counts_languages.json

@@ -1,6 +1,6 @@
 {
-    "Python": 5393,
-    "R": 2183,
+    "Python": 5420,
+    "R": 2186,
     "Cpp": 439,
     "Js": 1587,
     "Go": 246

_data/stats.json

@@ -1,9 +1,9 @@
 {
-    "python_deps": 4423,
+    "python_deps": 4444,
     "cpp_deps": 439,
-    "r_deps": 2183,
+    "r_deps": 2186,
     "js_deps": 1587,
     "go_deps": 246,
-    "total_repos": 5004,
-    "total_parsed": 2561
+    "total_repos": 5023,
+    "total_parsed": 2571
 }

_repos/github/AgrDataSci/climatrends/README.md

@@ -0,0 +1,18 @@
+---
+title: github/AgrDataSci/climatrends
+layout: repo
+tipue_search_active: true
+exclude_from_search: true
+---
+# Software Credit
+
+|Manager|Name|Credit|
+|-------|----|------|
+|DESCRIPTION|github/AgrDataSci/climatrends|0.01|
+|cran|[nasapower](https://docs.ropensci.org/nasapower/)|0.01|
+
+
+> Note that credit values are rounded and expanded (so shared dependencies are represented as one record) and may not add to 1.0. Rounded values that hit zero are removed.
+
+
+- Generated by [CiteLang](https://github.com/vsoch/citelang)

_repos/github/AgrDataSci/climatrends/data.json

@@ -0,0 +1,14 @@
+{
+    "DESCRIPTION": {
+        "github/AgrDataSci/climatrends": {
+            "credit": 0.01,
+            "url": null
+        }
+    },
+    "cran": {
+        "nasapower": {
+            "credit": 0.0099,
+            "url": "https://docs.ropensci.org/nasapower/"
+        }
+    }
+}