Measurements of the differential production cross-sections of prompt and non-prompt $J/\psi$ and $\psi(2$S$)$ mesons with transverse momenta between 8 and 360 GeV and rapidity in the range $|y|<2$ are reported. Furthermore, measurements of the non-prompt fractions of $J/\psi$ and $\psi(2$S$)$, and the prompt and non-prompt $\psi(2$S$)$-to-$J/\psi$ production ratios, are presented. The analysis is performed using 140 fb$^{-1}$ of $\sqrt{s}=13$ TeV $pp$ collision data recorded by the ATLAS detector at the LHC during the years 2015-2018.

This paper presents measurements of charged-hadron spectra obtained in $pp$, $p$+Pb, and Pb+Pb collisions at $\sqrt{s}$ or $\sqrt{s_{_\text{NN}}}=5.02$ TeV, and in Xe+Xe collisions at $\sqrt{s_{_\text{NN}}}=5.44$ TeV. The data recorded by the ATLAS detector at the LHC have total integrated luminosities of 25 pb${}^{-1}$, 28 nb${}^{-1}$, 0.50 nb${}^{-1}$, and 3 $\mu$b${}^{-1}$, respectively. The nuclear modification factors $R_{p\text{Pb}}$ and $R_\text{AA}$ are obtained by comparing the spectra in heavy-ion and $pp$ collisions in a wide range of charged-particle transverse momenta and pseudorapidity. The nuclear modification factor $R_{p\text{Pb}}$ shows a moderate enhancement above unity with a maximum at $p_{\mathrm{T}} \approx 3$ GeV; the enhancement is stronger in the Pb-going direction. The nuclear modification factors in both Pb+Pb and Xe+Xe collisions feature a significant, centrality-dependent suppression. They show a similar distinct $p_{\mathrm{T}}$-dependence with a local maximum at $p_{\mathrm{T}} \approx 2$ GeV and a local minimum at $p_{\mathrm{T}} \approx 7$ GeV. This dependence is more distinguishable in more central collisions. No significant $|\eta|$-dependence is found. A comprehensive comparison with several theoretical predictions is also provided. They typically describe $R_\text{AA}$ better in central collisions and in the $p_{\mathrm{T}}$ range from about 10 to 100 GeV.

The production of $\Upsilon$ mesons in Pb-Pb collisions at a centre-of-mass energy per nucleon pair $\sqrt{s_{\rm NN}}$ = 5 TeV is measured with the muon spectrometer of the ALICE detector at the LHC. The yields as well as the nuclear modification factors are determined in the forward rapidity region $2.5<y<4.0$, as a function of rapidity, transverse momentum and collision centrality. The results show that the production of the $\Upsilon$(1S) meson is suppressed by a factor of about three with respect to the production in proton-proton collisions. For the first time, a significant signal for the $\Upsilon$(2S) meson is observed at forward rapidity, indicating a suppression stronger by about a factor 2-3 with respect to the ground state. The measurements are compared with transport, hydrodynamic, comover and statistical hadronisation model calculations.

The coherent photoproduction of $\rm{J/\psi}$ and $\rm{\psi'}$ mesons was measured in ultra-peripheral Pb-Pb collisions at a center-of-mass energy $\sqrt{s_{\mathrm{NN}}}~=~5.02$ TeV with the ALICE detector. Charmonia are detected in the central rapidity region for events where the hadronic interactions are strongly suppressed. The $\rm{J/\psi}$ is reconstructed using the dilepton ($l^{+} l^{-}$) and proton-antiproton decay channels, while for the $\rm{\psi'}$, the dilepton and the $l^{+} l^{-} \pi^{+} \pi^{-}$ decay channels are studied. The analysis is based on an event sample corresponding to an integrated luminosity of about 233 ${\mu b}^{-1}$. The results are compared with theoretical models for coherent $\rm{J/\psi}$ and $\rm{\psi'}$ photoproduction. The coherent cross section is found to be in a good agreement with models incorporating moderate nuclear gluon shadowing of about 0.65 at a Bjorken-$x$ of around $6\times 10^{-4}$, such as the EPS09 parametrization, however none of the models is able to fully describe the rapidity dependence of the coherent $\rm{J/\psi}$ cross section including ALICE measurements at forward rapidity. The ratio of $\rm{\psi'}$ to $\rm{J/\psi}$ coherent photoproduction cross sections was also measured and found to be consistent with the one for photoproduction off protons.

Yields for J/psi production in Cu+Cu collisions at sqrt (s_NN)= 200 GeV have been measured by the PHENIX experiment over the rapidity range |y| < 2.2 at transverse momenta from 0 to beyond 5 GeV/c. The invariant yield is obtained as a function of rapidity, transverse momentum and collision centrality, and compared with results in p+p and Au+Au collisions at the same energy. The Cu+Cu data provide greatly improved precision over existing Au+Au data for J/psi production in collisions with small to intermediate numbers of participants, providing a key constraint that is needed for disentangling cold and hot nuclear matter effects.

The transverse momentum ($p_{\rm{T}}$) differential yields of (anti-)$^3$He and (anti-)$^3$H measured in p-Pb collisions at $\sqrt{s_{\rm{NN}}}$ = 5.02 TeV with ALICE at the Large Hadron Collider (LHC) are presented. The ratios of the $p_{\rm{T}}$-integrated yields of (anti-)$^3$He and (anti-)$^3$H to the proton yields are reported, as well as the $p_{\rm{T}}$ dependence of the coalescence parameters $B_3$ for (anti-)$^3$He and (anti-)$^3$H. For (anti-)$^3$He, the results obtained in four classes of the mean charged-particle multiplicity density are also discussed. These results are compared to predictions from a canonical statistical hadronization model and coalescence approaches. An upper limit on the total yield of $^4\bar{\mathrm{He}}$ is determined.

The ALICE Collaboration has measured the energy dependence of exclusive photoproduction of $J/\psi$ vector mesons off proton targets in ultra-peripheral p-Pb collisions at a centre-of-mass energy per nucleon pair $\sqrt{s_{\rm NN}} = 5.02$ TeV. The e$^+$e$^-$ and $\mu^+\mu^-$ decay channels are used to measure the cross section as a function of the rapidity of the $J/\psi$ in the range $-2.5 < y < 2.7$, corresponding to an energy in the $\gamma$p centre-of-mass in the interval $40 < W_{\gamma\mathrm{p}}<550$ GeV. The measurements, which are consistent with a power law dependence of the exclusive $J/\psi$ photoproduction cross section, are compared to previous results from HERA and the LHC and to several theoretical models. They are found to be compatible with previous measurements.

The production cross sections of the prompt charmed mesons D$^0$, D$^+$, D$^{*+}$ and D$_s$ were measured at mid-rapidity in p-Pb collisions at a centre-of-mass energy per nucleon pair $\sqrt{s_{\rm NN}}=5.02$ TeV with the ALICE detector at the LHC. D mesons were reconstructed from their decays D$^0\rightarrow{\rm K}^-\pi^+$, D$^+\rightarrow{\rm K}^-\pi^+\pi^+$, D$^{*+}\rightarrow D^0\pi^+$, D$_s^+\rightarrow\phi\pi^+\rightarrow{\rm K}^-{\rm K}^+\pi^+$, and their charge conjugates. The $p_{\rm T}$-differential production cross sections were measured at mid-rapidity in the interval $1<p_{\rm T}<24$ GeV/$c$ for D$^0$, D$^+$ and D$^{*+}$ mesons and in $2<p_{\rm T}<12$ GeV/$c$ for D$_s$ mesons, using an analysis method based on the selection of decay topologies displaced from the interaction vertex. The production cross sections of the D$^0$, D$^+$ and D$^{*+}$ mesons were also measured in three $p_{\rm T}$ intervals as a function of the rapidity $y_{\rm cms}$ in the centre-of-mass system in $-1.26<y_{\rm cms}<0.34$. In addition, the prompt D$^0$ cross section was measured in pp collisions at $\sqrt{s}=7$ TeV and p-Pb collisions at $\sqrt{s_{\rm NN}}=5.02$ TeV down to $p_{\rm T}=0$ using an analysis technique that is based on the estimation and subtraction of the combinatorial background, without reconstruction of the D$^0$ decay vertex. The nuclear modification factor $R_{\rm pPb}(p_{\rm T})$, defined as the ratio of the $p_{\rm T}$-differential D-meson cross section in p-Pb collisions and that in pp collisions scaled by the mass number of the Pb nucleus, was calculated for the four D-meson species and found to be compatible with unity within experimental uncertainties. The results are compared to theoretical calculations that include cold-nuclear-matter effects and to transport model calculations incorporating the interactions of charm quarks with an expanding deconfined medium.

The measurement of prompt D-meson production as a function of multiplicity in p-Pb collisions at $\sqrt{s_{\rm NN}}=5.02$ TeV with the ALICE detector at the LHC is reported. D$^0$, D$^+$ and D$^{*+}$ mesons are reconstructed via their hadronic decay channels in the centre-of-mass rapidity range $-0.96< y_{\mathrm{cms}}<0.04$ and transverse momentum interval $1<p_{\rm T}<24$ GeV/$c$. The multiplicity dependence of D-meson production is examined by either comparing yields in p-Pb collisions in different event classes, selected based on the multiplicity of produced particles or zero-degree energy, with those in pp collisions, scaled by the number of binary nucleon-nucleon collisions (nuclear modification factor); as well as by evaluating the per-event yields in p-Pb collisions in different multiplicity intervals normalised to the multiplicity-integrated ones (relative yields). The nuclear modification factors for D$^0$, D$^+$ and D$^{*+}$ are consistent with one another. The D-meson nuclear modification factors as a function of the zero-degree energy are consistent with unity within uncertainties in the measured $p_{\rm T}$ regions and event classes. The relative D-meson yields, calculated in various $p_{\rm T}$ intervals, increase as a function of the charged-particle multiplicity. The results are compared with the equivalent pp measurements at $\sqrt{s}=7$ TeV as well as with EPOS~3 calculations.

The production of charged pions, kaons and (anti)protons has been measured at mid-rapidity ($-0.5 y 0$) in p-Pb collisions at $\sqrt{s_{\rm NN}}=5.02$ TeV using the ALICE detector at the LHC. Exploiting particle identification capabilities at high transverse momentum ($p_{\rm T}$), the previously published $p_{\rm T}$ spectra have been extended to include measurements up to 20 GeV/$c$ for seven event multiplicity classes. The $p_{\rm T}$ spectra for pp collisions at $\sqrt{s}=7$ TeV, needed to interpolate a pp reference spectrum, have also been extended up to 20 GeV/$c$ to measure the nuclear modification factor ($R_{\rm pPb}$) in non-single diffractive p-Pb collisions. At intermediate transverse momentum ($2 p_{\rm T} 10$\,GeV/$c$) the proton-to-pion ratio increases with multiplicity in p-Pb collisions, a similar effect is not present in the kaon-to-pion ratio. The $p_{\rm T}$ dependent structure of such increase is qualitatively similar to those observed in pp and heavy-ion collisions. At high $p_{\rm T}$ ($>10$ GeV/$c$), the particle ratios are consistent with those reported for pp and Pb-Pb collisions at the LHC energies. At intermediate $p_{\rm T}$ the (anti)proton $R_{\rm pPb}$ shows a Cronin-like enhancement, while pions and kaons show little or no nuclear modification. At high $p_{\rm T}$ the charged pion, kaon and (anti)proton $R_{\rm pPb}$ are consistent with unity within statistical and systematic uncertainties.